-- dump date 20140619_115031 -- class Genbank::misc_feature -- table misc_feature_note -- id note 760142000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 760142000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142000003 Walker A motif; other site 760142000004 ATP binding site [chemical binding]; other site 760142000005 Walker B motif; other site 760142000006 arginine finger; other site 760142000007 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 760142000008 DnaA box-binding interface [nucleotide binding]; other site 760142000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 760142000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cl17512 760142000011 putative DNA binding surface [nucleotide binding]; other site 760142000012 dimer interface [polypeptide binding]; other site 760142000013 beta-clamp/clamp loader binding surface; other site 760142000014 beta-clamp/translesion DNA polymerase binding surface; other site 760142000015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142000016 Walker A/P-loop; other site 760142000017 ATP binding site [chemical binding]; other site 760142000018 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 760142000019 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142000020 ATP binding site [chemical binding]; other site 760142000021 Mg2+ binding site [ion binding]; other site 760142000022 G-X-G motif; other site 760142000023 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 760142000024 anchoring element; other site 760142000025 dimer interface [polypeptide binding]; other site 760142000026 ATP binding site [chemical binding]; other site 760142000027 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 760142000028 active site 760142000029 putative metal-binding site [ion binding]; other site 760142000030 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 760142000031 DNA gyrase subunit A; Validated; Region: PRK05560 760142000032 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 760142000033 CAP-like domain; other site 760142000034 active site 760142000035 primary dimer interface [polypeptide binding]; other site 760142000036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 760142000037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 760142000038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 760142000039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 760142000040 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 760142000041 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 760142000042 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 760142000043 substrate binding pocket [chemical binding]; other site 760142000044 chain length determination region; other site 760142000045 substrate-Mg2+ binding site; other site 760142000046 catalytic residues [active] 760142000047 aspartate-rich region 1; other site 760142000048 active site lid residues [active] 760142000049 aspartate-rich region 2; other site 760142000050 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 760142000051 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 760142000052 tRNA; other site 760142000053 putative tRNA binding site [nucleotide binding]; other site 760142000054 putative NADP binding site [chemical binding]; other site 760142000055 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 760142000056 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 760142000057 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 760142000058 domain interfaces; other site 760142000059 active site 760142000060 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 760142000061 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 760142000062 active site 760142000063 transketolase; Reviewed; Region: PRK05899 760142000064 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 760142000065 TPP-binding site [chemical binding]; other site 760142000066 dimer interface [polypeptide binding]; other site 760142000067 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 760142000068 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 760142000069 PYR/PP interface [polypeptide binding]; other site 760142000070 dimer interface [polypeptide binding]; other site 760142000071 TPP binding site [chemical binding]; other site 760142000072 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 760142000073 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 760142000074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142000075 Walker A/P-loop; other site 760142000076 ATP binding site [chemical binding]; other site 760142000077 Q-loop/lid; other site 760142000078 ABC transporter signature motif; other site 760142000079 Walker B; other site 760142000080 D-loop; other site 760142000081 H-loop/switch region; other site 760142000082 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 760142000083 FtsX-like permease family; Region: FtsX; pfam02687 760142000084 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 760142000085 Peptidase family M23; Region: Peptidase_M23; pfam01551 760142000086 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 760142000087 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 760142000088 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 760142000089 protein binding site [polypeptide binding]; other site 760142000090 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 760142000091 Catalytic dyad [active] 760142000092 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 760142000093 NodB motif; other site 760142000094 putative active site [active] 760142000095 putative catalytic site [active] 760142000096 Zn binding site [ion binding]; other site 760142000097 UGMP family protein; Validated; Region: PRK09604 760142000098 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 760142000099 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 760142000100 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 760142000101 serine O-acetyltransferase; Region: cysE; TIGR01172 760142000102 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 760142000103 trimer interface [polypeptide binding]; other site 760142000104 active site 760142000105 substrate binding site [chemical binding]; other site 760142000106 CoA binding site [chemical binding]; other site 760142000107 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 760142000108 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 760142000109 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 760142000110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142000111 Zn2+ binding site [ion binding]; other site 760142000112 Mg2+ binding site [ion binding]; other site 760142000113 GMP synthase; Reviewed; Region: guaA; PRK00074 760142000114 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 760142000115 AMP/PPi binding site [chemical binding]; other site 760142000116 candidate oxyanion hole; other site 760142000117 catalytic triad [active] 760142000118 potential glutamine specificity residues [chemical binding]; other site 760142000119 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 760142000120 ATP Binding subdomain [chemical binding]; other site 760142000121 Dimerization subdomain; other site 760142000122 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 760142000123 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 760142000124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142000125 Zn2+ binding site [ion binding]; other site 760142000126 Mg2+ binding site [ion binding]; other site 760142000127 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 760142000128 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 760142000129 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 760142000130 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142000131 FeS/SAM binding site; other site 760142000132 TRAM domain; Region: TRAM; pfam01938 760142000133 YceG-like family; Region: YceG; pfam02618 760142000134 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 760142000135 dimerization interface [polypeptide binding]; other site 760142000136 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 760142000137 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 760142000138 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 760142000139 active site 760142000140 metal binding site [ion binding]; metal-binding site 760142000141 Chorismate mutase type II; Region: CM_2; pfam01817 760142000142 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 760142000143 Prephenate dehydratase; Region: PDT; pfam00800 760142000144 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 760142000145 putative L-Phe binding site [chemical binding]; other site 760142000146 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 760142000147 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 760142000148 aspartate kinase; Reviewed; Region: PRK06635 760142000149 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 760142000150 putative catalytic residues [active] 760142000151 putative nucleotide binding site [chemical binding]; other site 760142000152 putative aspartate binding site [chemical binding]; other site 760142000153 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 760142000154 putative allosteric regulatory site; other site 760142000155 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 760142000156 putative allosteric regulatory residue; other site 760142000157 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 760142000158 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 760142000159 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 760142000160 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 760142000161 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 760142000162 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 760142000163 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 760142000164 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 760142000165 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 760142000166 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 760142000167 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 760142000168 RNA binding surface [nucleotide binding]; other site 760142000169 SurA N-terminal domain; Region: SurA_N; pfam09312 760142000170 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 760142000171 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 760142000172 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 760142000173 generic binding surface I; other site 760142000174 generic binding surface II; other site 760142000175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142000176 Zn2+ binding site [ion binding]; other site 760142000177 Mg2+ binding site [ion binding]; other site 760142000178 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 760142000179 thymidylate kinase; Validated; Region: tmk; PRK00698 760142000180 TMP-binding site; other site 760142000181 ATP-binding site [chemical binding]; other site 760142000182 DNA polymerase III subunit delta'; Validated; Region: PRK08485 760142000183 PSP1 C-terminal conserved region; Region: PSP1; cl00770 760142000184 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 760142000185 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 760142000186 active site 760142000187 HIGH motif; other site 760142000188 KMSKS motif; other site 760142000189 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 760142000190 tRNA binding surface [nucleotide binding]; other site 760142000191 anticodon binding site; other site 760142000192 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 760142000193 dimer interface [polypeptide binding]; other site 760142000194 putative tRNA-binding site [nucleotide binding]; other site 760142000195 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 760142000196 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 760142000197 Walker A/P-loop; other site 760142000198 ATP binding site [chemical binding]; other site 760142000199 Q-loop/lid; other site 760142000200 ABC transporter signature motif; other site 760142000201 Walker B; other site 760142000202 D-loop; other site 760142000203 H-loop/switch region; other site 760142000204 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 760142000205 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 760142000206 Walker A/P-loop; other site 760142000207 ATP binding site [chemical binding]; other site 760142000208 Q-loop/lid; other site 760142000209 ABC transporter signature motif; other site 760142000210 Walker B; other site 760142000211 D-loop; other site 760142000212 H-loop/switch region; other site 760142000213 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 760142000214 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 760142000215 TM-ABC transporter signature motif; other site 760142000216 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142000217 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 760142000218 TM-ABC transporter signature motif; other site 760142000219 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 760142000220 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 760142000221 dimerization interface [polypeptide binding]; other site 760142000222 ligand binding site [chemical binding]; other site 760142000223 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 760142000224 putative recombination protein RecB; Provisional; Region: PRK13909 760142000225 Family description; Region: UvrD_C_2; pfam13538 760142000226 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 760142000227 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 760142000228 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142000229 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 760142000230 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 760142000231 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 760142000232 ligand-binding site [chemical binding]; other site 760142000233 hypothetical protein; Reviewed; Region: PRK12275 760142000234 four helix bundle protein; Region: TIGR02436 760142000235 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 760142000236 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 760142000237 active site 760142000238 shikimate kinase; Reviewed; Region: aroK; PRK00131 760142000239 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 760142000240 ligand-binding site [chemical binding]; other site 760142000241 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 760142000242 Transposase IS200 like; Region: Y1_Tnp; pfam01797 760142000243 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cl07055 760142000244 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 760142000245 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 760142000246 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 760142000247 active site 760142000248 DNA binding site [nucleotide binding] 760142000249 Int/Topo IB signature motif; other site 760142000250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142000251 Walker A motif; other site 760142000252 ATP binding site [chemical binding]; other site 760142000253 Walker B motif; other site 760142000254 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142000255 MULE transposase domain; Region: MULE; pfam10551 760142000256 Protein of unknown function DUF86; Region: DUF86; cl01031 760142000257 Protein of unknown function DUF86; Region: DUF86; cl01031 760142000258 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 760142000259 active site 760142000260 NTP binding site [chemical binding]; other site 760142000261 metal binding triad [ion binding]; metal-binding site 760142000262 antibiotic binding site [chemical binding]; other site 760142000263 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 760142000264 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 760142000265 putative dimer interface [polypeptide binding]; other site 760142000266 active site pocket [active] 760142000267 putative cataytic base [active] 760142000268 cobalamin synthase; Reviewed; Region: cobS; PRK00235 760142000269 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 760142000270 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142000271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142000272 homodimer interface [polypeptide binding]; other site 760142000273 catalytic residue [active] 760142000274 cobyric acid synthase; Provisional; Region: PRK00784 760142000275 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 760142000276 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 760142000277 catalytic triad [active] 760142000278 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 760142000279 phosphoenolpyruvate synthase; Validated; Region: PRK06464 760142000280 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 760142000281 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 760142000282 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 760142000283 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 760142000284 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 760142000285 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 760142000286 dimerization interface 3.5A [polypeptide binding]; other site 760142000287 active site 760142000288 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 760142000289 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 760142000290 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 760142000291 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 760142000292 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 760142000293 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 760142000294 putative metal binding site; other site 760142000295 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 760142000296 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 760142000297 putative active site [active] 760142000298 putative metal binding site [ion binding]; other site 760142000299 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 760142000300 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 760142000301 non-specific DNA binding site [nucleotide binding]; other site 760142000302 salt bridge; other site 760142000303 sequence-specific DNA binding site [nucleotide binding]; other site 760142000304 Cupin domain; Region: Cupin_2; pfam07883 760142000305 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 760142000306 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 760142000307 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 760142000308 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 760142000309 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 760142000310 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 760142000311 trmE is a tRNA modification GTPase; Region: trmE; cd04164 760142000312 G1 box; other site 760142000313 GTP/Mg2+ binding site [chemical binding]; other site 760142000314 Switch I region; other site 760142000315 G2 box; other site 760142000316 Switch II region; other site 760142000317 G3 box; other site 760142000318 G4 box; other site 760142000319 G5 box; other site 760142000320 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 760142000321 membrane protein insertase; Provisional; Region: PRK01318 760142000322 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 760142000323 Haemolytic domain; Region: Haemolytic; pfam01809 760142000324 Ribonuclease P; Region: Ribonuclease_P; pfam00825 760142000325 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 760142000326 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 760142000327 putative active site [active] 760142000328 putative metal binding site [ion binding]; other site 760142000329 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 760142000330 MoaE homodimer interface [polypeptide binding]; other site 760142000331 active site residues [active] 760142000332 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142000333 Radical SAM superfamily; Region: Radical_SAM; pfam04055 760142000334 FeS/SAM binding site; other site 760142000335 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 760142000336 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 760142000337 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 760142000338 Walker A/P-loop; other site 760142000339 ATP binding site [chemical binding]; other site 760142000340 Q-loop/lid; other site 760142000341 ABC transporter signature motif; other site 760142000342 Walker B; other site 760142000343 D-loop; other site 760142000344 H-loop/switch region; other site 760142000345 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 760142000346 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 760142000347 Malic enzyme, N-terminal domain; Region: malic; pfam00390 760142000348 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 760142000349 putative NAD(P) binding site [chemical binding]; other site 760142000350 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 760142000351 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 760142000352 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 760142000353 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 760142000354 DctM-like transporters; Region: DctM; pfam06808 760142000355 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 760142000356 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 760142000357 nucleoside/Zn binding site; other site 760142000358 dimer interface [polypeptide binding]; other site 760142000359 catalytic motif [active] 760142000360 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 760142000361 DHH family; Region: DHH; pfam01368 760142000362 FOG: CBS domain [General function prediction only]; Region: COG0517 760142000363 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 760142000364 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 760142000365 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 760142000366 active site 760142000367 NTP binding site [chemical binding]; other site 760142000368 metal binding triad [ion binding]; metal-binding site 760142000369 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 760142000370 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 760142000371 Ligand Binding Site [chemical binding]; other site 760142000372 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 760142000373 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142000374 FeS/SAM binding site; other site 760142000375 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 760142000376 HAMP domain; Region: HAMP; pfam00672 760142000377 dimerization interface [polypeptide binding]; other site 760142000378 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142000379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142000380 metal binding site [ion binding]; metal-binding site 760142000381 active site 760142000382 I-site; other site 760142000383 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 760142000384 putative active site [active] 760142000385 dimerization interface [polypeptide binding]; other site 760142000386 putative tRNAtyr binding site [nucleotide binding]; other site 760142000387 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 760142000388 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 760142000389 NADP binding site [chemical binding]; other site 760142000390 homopentamer interface [polypeptide binding]; other site 760142000391 substrate binding site [chemical binding]; other site 760142000392 active site 760142000393 FecR protein; Region: FecR; pfam04773 760142000394 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 760142000395 reactive center loop; other site 760142000396 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 760142000397 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 760142000398 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 760142000399 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 760142000400 ligand binding site [chemical binding]; other site 760142000401 flexible hinge region; other site 760142000402 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 760142000403 putative switch regulator; other site 760142000404 non-specific DNA interactions [nucleotide binding]; other site 760142000405 DNA binding site [nucleotide binding] 760142000406 sequence specific DNA binding site [nucleotide binding]; other site 760142000407 putative cAMP binding site [chemical binding]; other site 760142000408 hybrid cluster protein; Provisional; Region: PRK05290 760142000409 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 760142000410 ACS interaction site; other site 760142000411 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 760142000412 hybrid metal cluster; other site 760142000413 Methyltransferase domain; Region: Methyltransf_31; pfam13847 760142000414 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142000415 S-adenosylmethionine binding site [chemical binding]; other site 760142000416 argininosuccinate synthase; Provisional; Region: PRK13820 760142000417 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 760142000418 ANP binding site [chemical binding]; other site 760142000419 Substrate Binding Site II [chemical binding]; other site 760142000420 Substrate Binding Site I [chemical binding]; other site 760142000421 ornithine carbamoyltransferase; Provisional; Region: PRK00779 760142000422 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 760142000423 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 760142000424 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 760142000425 Domain of unknown function (DUF364); Region: DUF364; pfam04016 760142000426 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 760142000427 catalytic residues [active] 760142000428 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 760142000429 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 760142000430 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 760142000431 non-specific DNA binding site [nucleotide binding]; other site 760142000432 salt bridge; other site 760142000433 sequence-specific DNA binding site [nucleotide binding]; other site 760142000434 Cupin domain; Region: Cupin_2; pfam07883 760142000435 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 760142000436 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 760142000437 Walker A/P-loop; other site 760142000438 ATP binding site [chemical binding]; other site 760142000439 Q-loop/lid; other site 760142000440 ABC transporter signature motif; other site 760142000441 Walker B; other site 760142000442 D-loop; other site 760142000443 H-loop/switch region; other site 760142000444 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 760142000445 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 760142000446 Walker A/P-loop; other site 760142000447 ATP binding site [chemical binding]; other site 760142000448 Q-loop/lid; other site 760142000449 ABC transporter signature motif; other site 760142000450 Walker B; other site 760142000451 D-loop; other site 760142000452 H-loop/switch region; other site 760142000453 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 760142000454 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 760142000455 TM-ABC transporter signature motif; other site 760142000456 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142000457 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 760142000458 TM-ABC transporter signature motif; other site 760142000459 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 760142000460 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 760142000461 putative ligand binding site [chemical binding]; other site 760142000462 pyruvate carboxylase; Reviewed; Region: PRK12999 760142000463 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 760142000464 ATP-grasp domain; Region: ATP-grasp_4; cl17255 760142000465 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 760142000466 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 760142000467 active site 760142000468 catalytic residues [active] 760142000469 metal binding site [ion binding]; metal-binding site 760142000470 homodimer binding site [polypeptide binding]; other site 760142000471 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 760142000472 carboxyltransferase (CT) interaction site; other site 760142000473 biotinylation site [posttranslational modification]; other site 760142000474 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 760142000475 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 760142000476 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 760142000477 Soluble P-type ATPase [General function prediction only]; Region: COG4087 760142000478 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 760142000479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142000480 Walker A/P-loop; other site 760142000481 ATP binding site [chemical binding]; other site 760142000482 Q-loop/lid; other site 760142000483 ABC transporter signature motif; other site 760142000484 Walker B; other site 760142000485 D-loop; other site 760142000486 H-loop/switch region; other site 760142000487 malate dehydrogenase; Reviewed; Region: PRK06223 760142000488 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 760142000489 NAD(P) binding site [chemical binding]; other site 760142000490 dimer interface [polypeptide binding]; other site 760142000491 tetramer (dimer of dimers) interface [polypeptide binding]; other site 760142000492 substrate binding site [chemical binding]; other site 760142000493 fumarate hydratase; Provisional; Region: PRK06246 760142000494 Fumarase C-terminus; Region: Fumerase_C; cl00795 760142000495 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 760142000496 Iron-sulfur protein interface; other site 760142000497 proximal heme binding site [chemical binding]; other site 760142000498 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 760142000499 Iron-sulfur protein interface; other site 760142000500 proximal heme binding site [chemical binding]; other site 760142000501 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 760142000502 L-aspartate oxidase; Provisional; Region: PRK06175 760142000503 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 760142000504 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 760142000505 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 760142000506 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 760142000507 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 760142000508 generic binding surface II; other site 760142000509 generic binding surface I; other site 760142000510 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 760142000511 RuvA N terminal domain; Region: RuvA_N; pfam01330 760142000512 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 760142000513 tetratricopeptide repeat protein; Provisional; Region: PRK11788 760142000514 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142000515 binding surface 760142000516 TPR motif; other site 760142000517 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142000518 binding surface 760142000519 TPR motif; other site 760142000520 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 760142000521 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 760142000522 nucleotide binding site/active site [active] 760142000523 HIT family signature motif; other site 760142000524 catalytic residue [active] 760142000525 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 760142000526 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142000527 acyl-activating enzyme (AAE) consensus motif; other site 760142000528 AMP binding site [chemical binding]; other site 760142000529 active site 760142000530 CoA binding site [chemical binding]; other site 760142000531 ACT domain-containing protein [General function prediction only]; Region: COG4747 760142000532 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 760142000533 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 760142000534 DctM-like transporters; Region: DctM; pfam06808 760142000535 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 760142000536 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 760142000537 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 760142000538 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 760142000539 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 760142000540 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 760142000541 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 760142000542 FMN binding site [chemical binding]; other site 760142000543 active site 760142000544 catalytic residues [active] 760142000545 substrate binding site [chemical binding]; other site 760142000546 transcription termination factor Rho; Provisional; Region: rho; PRK09376 760142000547 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 760142000548 RNA binding site [nucleotide binding]; other site 760142000549 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 760142000550 multimer interface [polypeptide binding]; other site 760142000551 Walker A motif; other site 760142000552 ATP binding site [chemical binding]; other site 760142000553 Walker B motif; other site 760142000554 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 760142000555 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 760142000556 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 760142000557 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 760142000558 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 760142000559 Phosphoglycerate kinase; Region: PGK; pfam00162 760142000560 substrate binding site [chemical binding]; other site 760142000561 hinge regions; other site 760142000562 ADP binding site [chemical binding]; other site 760142000563 catalytic site [active] 760142000564 triosephosphate isomerase; Provisional; Region: PRK14565 760142000565 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 760142000566 substrate binding site [chemical binding]; other site 760142000567 dimer interface [polypeptide binding]; other site 760142000568 catalytic triad [active] 760142000569 Preprotein translocase SecG subunit; Region: SecG; pfam03840 760142000570 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 760142000571 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 760142000572 peptide binding site [polypeptide binding]; other site 760142000573 NIL domain; Region: NIL; pfam09383 760142000574 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 760142000575 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 760142000576 hypothetical protein; Provisional; Region: PRK04334 760142000577 Domain of unknown function DUF39; Region: DUF39; pfam01837 760142000578 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 760142000579 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 760142000580 catalytic residue [active] 760142000581 Isochorismatase family; Region: Isochorismatase; pfam00857 760142000582 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 760142000583 catalytic triad [active] 760142000584 conserved cis-peptide bond; other site 760142000585 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 760142000586 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 760142000587 active site 760142000588 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 760142000589 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 760142000590 active site 760142000591 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 760142000592 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 760142000593 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 760142000594 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 760142000595 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 760142000596 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 760142000597 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142000598 FeS/SAM binding site; other site 760142000599 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 760142000600 putative active site pocket [active] 760142000601 4-fold oligomerization interface [polypeptide binding]; other site 760142000602 metal binding residues [ion binding]; metal-binding site 760142000603 3-fold/trimer interface [polypeptide binding]; other site 760142000604 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 760142000605 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 760142000606 substrate binding pocket [chemical binding]; other site 760142000607 chain length determination region; other site 760142000608 substrate-Mg2+ binding site; other site 760142000609 catalytic residues [active] 760142000610 aspartate-rich region 1; other site 760142000611 active site lid residues [active] 760142000612 aspartate-rich region 2; other site 760142000613 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 760142000614 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 760142000615 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 760142000616 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 760142000617 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 760142000618 EamA-like transporter family; Region: EamA; pfam00892 760142000619 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 760142000620 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 760142000621 Ligand Binding Site [chemical binding]; other site 760142000622 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 760142000623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142000624 active site 760142000625 phosphorylation site [posttranslational modification] 760142000626 intermolecular recognition site; other site 760142000627 dimerization interface [polypeptide binding]; other site 760142000628 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 760142000629 DNA binding site [nucleotide binding] 760142000630 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 760142000631 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 760142000632 dimerization interface [polypeptide binding]; other site 760142000633 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 760142000634 dimer interface [polypeptide binding]; other site 760142000635 phosphorylation site [posttranslational modification] 760142000636 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142000637 ATP binding site [chemical binding]; other site 760142000638 Mg2+ binding site [ion binding]; other site 760142000639 G-X-G motif; other site 760142000640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142000641 Major Facilitator Superfamily; Region: MFS_1; pfam07690 760142000642 putative substrate translocation pore; other site 760142000643 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142000644 S-adenosylmethionine binding site [chemical binding]; other site 760142000645 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 760142000646 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 760142000647 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 760142000648 active site 760142000649 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 760142000650 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 760142000651 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 760142000652 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 760142000653 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 760142000654 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 760142000655 active site 760142000656 LssY C-terminus; Region: LssY_C; pfam14067 760142000657 LysE type translocator; Region: LysE; cl00565 760142000658 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142000659 S-adenosylmethionine binding site [chemical binding]; other site 760142000660 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 760142000661 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 760142000662 DRTGG domain; Region: DRTGG; pfam07085 760142000663 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 760142000664 DHHA2 domain; Region: DHHA2; pfam02833 760142000665 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142000666 MULE transposase domain; Region: MULE; pfam10551 760142000667 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 760142000668 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 760142000669 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 760142000670 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 760142000671 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 760142000672 septum formation inhibitor; Reviewed; Region: minC; PRK00513 760142000673 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 760142000674 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 760142000675 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 760142000676 Switch I; other site 760142000677 Switch II; other site 760142000678 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 760142000679 EamA-like transporter family; Region: EamA; cl17759 760142000680 EamA-like transporter family; Region: EamA; pfam00892 760142000681 Trm112p-like protein; Region: Trm112p; cl01066 760142000682 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 760142000683 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 760142000684 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 760142000685 23S rRNA interface [nucleotide binding]; other site 760142000686 L3 interface [polypeptide binding]; other site 760142000687 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 760142000688 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 760142000689 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 760142000690 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 760142000691 heterotetramer interface [polypeptide binding]; other site 760142000692 active site pocket [active] 760142000693 cleavage site 760142000694 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 760142000695 CoenzymeA binding site [chemical binding]; other site 760142000696 subunit interaction site [polypeptide binding]; other site 760142000697 PHB binding site; other site 760142000698 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142000699 Winged helix-turn helix; Region: HTH_29; pfam13551 760142000700 Integrase core domain; Region: rve; pfam00665 760142000701 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 760142000702 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 760142000703 substrate binding site [chemical binding]; other site 760142000704 glutamase interaction surface [polypeptide binding]; other site 760142000705 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 760142000706 MPT binding site; other site 760142000707 trimer interface [polypeptide binding]; other site 760142000708 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 760142000709 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 760142000710 aconitate hydratase; Validated; Region: PRK07229 760142000711 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 760142000712 substrate binding site [chemical binding]; other site 760142000713 ligand binding site [chemical binding]; other site 760142000714 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 760142000715 substrate binding site [chemical binding]; other site 760142000716 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 760142000717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142000718 active site 760142000719 phosphorylation site [posttranslational modification] 760142000720 intermolecular recognition site; other site 760142000721 CheB methylesterase; Region: CheB_methylest; pfam01339 760142000722 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 760142000723 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 760142000724 flagellar motor switch protein FliY; Validated; Region: PRK08432 760142000725 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 760142000726 CoA binding domain; Region: CoA_binding; cl17356 760142000727 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 760142000728 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 760142000729 hinge; other site 760142000730 active site 760142000731 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 760142000732 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 760142000733 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 760142000734 Fe-S cluster binding site [ion binding]; other site 760142000735 active site 760142000736 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 760142000737 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 760142000738 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 760142000739 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 760142000740 active site 760142000741 dimer interface [polypeptide binding]; other site 760142000742 metal binding site [ion binding]; metal-binding site 760142000743 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142000744 binding surface 760142000745 TPR motif; other site 760142000746 TPR repeat; Region: TPR_11; pfam13414 760142000747 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 760142000748 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 760142000749 FAD binding pocket [chemical binding]; other site 760142000750 FAD binding motif [chemical binding]; other site 760142000751 phosphate binding motif [ion binding]; other site 760142000752 beta-alpha-beta structure motif; other site 760142000753 NAD binding pocket [chemical binding]; other site 760142000754 Iron coordination center [ion binding]; other site 760142000755 putative oxidoreductase; Provisional; Region: PRK12831 760142000756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 760142000757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142000758 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 760142000759 NADH dehydrogenase subunit B; Validated; Region: PRK06411 760142000760 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 760142000761 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 760142000762 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 760142000763 NADH dehydrogenase subunit D; Validated; Region: PRK06075 760142000764 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 760142000765 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 760142000766 catalytic loop [active] 760142000767 iron binding site [ion binding]; other site 760142000768 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 760142000769 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 760142000770 molybdopterin cofactor binding site; other site 760142000771 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 760142000772 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 760142000773 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 760142000774 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 760142000775 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 760142000776 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 760142000777 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 760142000778 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 760142000779 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 760142000780 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 760142000781 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 760142000782 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 760142000783 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 760142000784 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 760142000785 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 760142000786 acetylornithine aminotransferase; Provisional; Region: PRK02627 760142000787 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 760142000788 inhibitor-cofactor binding pocket; inhibition site 760142000789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142000790 catalytic residue [active] 760142000791 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 760142000792 tetramer interfaces [polypeptide binding]; other site 760142000793 binuclear metal-binding site [ion binding]; other site 760142000794 Competence-damaged protein; Region: CinA; pfam02464 760142000795 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 760142000796 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 760142000797 recombinase A; Provisional; Region: recA; PRK09354 760142000798 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 760142000799 hexamer interface [polypeptide binding]; other site 760142000800 Walker A motif; other site 760142000801 ATP binding site [chemical binding]; other site 760142000802 Walker B motif; other site 760142000803 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 760142000804 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 760142000805 ATP binding site [chemical binding]; other site 760142000806 Walker B motif; other site 760142000807 recombination regulator RecX; Reviewed; Region: recX; PRK00117 760142000808 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 760142000809 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 760142000810 motif 1; other site 760142000811 active site 760142000812 motif 2; other site 760142000813 motif 3; other site 760142000814 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 760142000815 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 760142000816 putative ligand binding pocket/active site [active] 760142000817 putative metal binding site [ion binding]; other site 760142000818 Competence protein; Region: Competence; pfam03772 760142000819 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 760142000820 TPR repeat; Region: TPR_11; pfam13414 760142000821 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142000822 binding surface 760142000823 TPR motif; other site 760142000824 TPR repeat; Region: TPR_11; pfam13414 760142000825 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 760142000826 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142000827 Walker A motif; other site 760142000828 ATP binding site [chemical binding]; other site 760142000829 Walker B motif; other site 760142000830 arginine finger; other site 760142000831 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 760142000832 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 760142000833 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 760142000834 RNA binding surface [nucleotide binding]; other site 760142000835 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 760142000836 active site 760142000837 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 760142000838 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 760142000839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 760142000840 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 760142000841 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 760142000842 DNA binding residues [nucleotide binding] 760142000843 Uncharacterized conserved protein [Function unknown]; Region: COG1434 760142000844 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 760142000845 putative active site [active] 760142000846 Protein of unknown function (DUF342); Region: DUF342; pfam03961 760142000847 Chain length determinant protein; Region: Wzz; pfam02706 760142000848 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 760142000849 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 760142000850 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 760142000851 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 760142000852 Cysteine-rich domain; Region: CCG; pfam02754 760142000853 Cysteine-rich domain; Region: CCG; pfam02754 760142000854 diaminopimelate decarboxylase; Region: lysA; TIGR01048 760142000855 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 760142000856 active site 760142000857 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 760142000858 substrate binding site [chemical binding]; other site 760142000859 catalytic residues [active] 760142000860 dimer interface [polypeptide binding]; other site 760142000861 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 760142000862 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 760142000863 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 760142000864 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 760142000865 dihydrodipicolinate synthase; Region: dapA; TIGR00674 760142000866 dimer interface [polypeptide binding]; other site 760142000867 active site 760142000868 catalytic residue [active] 760142000869 dihydrodipicolinate reductase; Provisional; Region: PRK00048 760142000870 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 760142000871 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 760142000872 amidophosphoribosyltransferase; Provisional; Region: PRK09123 760142000873 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 760142000874 active site 760142000875 tetramer interface [polypeptide binding]; other site 760142000876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 760142000877 active site 760142000878 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 760142000879 DEAD/DEAH box helicase; Region: DEAD; pfam00270 760142000880 DEAD_2; Region: DEAD_2; pfam06733 760142000881 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 760142000882 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 760142000883 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 760142000884 Cl- selectivity filter; other site 760142000885 Cl- binding residues [ion binding]; other site 760142000886 pore gating glutamate residue; other site 760142000887 dimer interface [polypeptide binding]; other site 760142000888 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 760142000889 FOG: CBS domain [General function prediction only]; Region: COG0517 760142000890 recombination factor protein RarA; Reviewed; Region: PRK13342 760142000891 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142000892 Walker A motif; other site 760142000893 ATP binding site [chemical binding]; other site 760142000894 Walker B motif; other site 760142000895 arginine finger; other site 760142000896 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 760142000897 thiamine monophosphate kinase; Provisional; Region: PRK05731 760142000898 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 760142000899 ATP binding site [chemical binding]; other site 760142000900 dimerization interface [polypeptide binding]; other site 760142000901 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 760142000902 Domain of unknown function DUF21; Region: DUF21; pfam01595 760142000903 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 760142000904 Transporter associated domain; Region: CorC_HlyC; smart01091 760142000905 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 760142000906 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 760142000907 substrate binding site [chemical binding]; other site 760142000908 hexamer interface [polypeptide binding]; other site 760142000909 metal binding site [ion binding]; metal-binding site 760142000910 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 760142000911 Ligand binding site; other site 760142000912 Putative Catalytic site; other site 760142000913 DXD motif; other site 760142000914 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 760142000915 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 760142000916 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 760142000917 TrkA-N domain; Region: TrkA_N; pfam02254 760142000918 TrkA-C domain; Region: TrkA_C; pfam02080 760142000919 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 760142000920 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142000921 FeS/SAM binding site; other site 760142000922 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 760142000923 NAD-dependent deacetylase; Provisional; Region: PRK00481 760142000924 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 760142000925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142000926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142000927 metal binding site [ion binding]; metal-binding site 760142000928 active site 760142000929 I-site; other site 760142000930 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 760142000931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 760142000932 Oligomerisation domain; Region: Oligomerisation; pfam02410 760142000933 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 760142000934 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 760142000935 active site 760142000936 (T/H)XGH motif; other site 760142000937 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 760142000938 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 760142000939 putative catalytic cysteine [active] 760142000940 gamma-glutamyl kinase; Provisional; Region: PRK05429 760142000941 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 760142000942 nucleotide binding site [chemical binding]; other site 760142000943 homotetrameric interface [polypeptide binding]; other site 760142000944 putative phosphate binding site [ion binding]; other site 760142000945 putative allosteric binding site; other site 760142000946 PUA domain; Region: PUA; pfam01472 760142000947 GTPase CgtA; Reviewed; Region: obgE; PRK12299 760142000948 GTP1/OBG; Region: GTP1_OBG; pfam01018 760142000949 Obg GTPase; Region: Obg; cd01898 760142000950 G1 box; other site 760142000951 GTP/Mg2+ binding site [chemical binding]; other site 760142000952 Switch I region; other site 760142000953 G2 box; other site 760142000954 G3 box; other site 760142000955 Switch II region; other site 760142000956 G4 box; other site 760142000957 G5 box; other site 760142000958 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 760142000959 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 760142000960 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 760142000961 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 760142000962 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 760142000963 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 760142000964 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 760142000965 active site 760142000966 dimer interface [polypeptide binding]; other site 760142000967 motif 1; other site 760142000968 motif 2; other site 760142000969 motif 3; other site 760142000970 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 760142000971 anticodon binding site; other site 760142000972 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 760142000973 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 760142000974 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 760142000975 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 760142000976 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 760142000977 23S rRNA binding site [nucleotide binding]; other site 760142000978 L21 binding site [polypeptide binding]; other site 760142000979 L13 binding site [polypeptide binding]; other site 760142000980 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 760142000981 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 760142000982 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 760142000983 dimer interface [polypeptide binding]; other site 760142000984 motif 1; other site 760142000985 active site 760142000986 motif 2; other site 760142000987 motif 3; other site 760142000988 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 760142000989 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 760142000990 putative tRNA-binding site [nucleotide binding]; other site 760142000991 B3/4 domain; Region: B3_4; pfam03483 760142000992 tRNA synthetase B5 domain; Region: B5; smart00874 760142000993 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 760142000994 dimer interface [polypeptide binding]; other site 760142000995 motif 1; other site 760142000996 motif 3; other site 760142000997 motif 2; other site 760142000998 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 760142000999 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 760142001000 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 760142001001 active site 760142001002 HIGH motif; other site 760142001003 nucleotide binding site [chemical binding]; other site 760142001004 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 760142001005 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 760142001006 active site 760142001007 KMSKS motif; other site 760142001008 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 760142001009 tRNA binding surface [nucleotide binding]; other site 760142001010 anticodon binding site; other site 760142001011 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 760142001012 Uncharacterized conserved protein [Function unknown]; Region: AMMECR1; COG2078 760142001013 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 760142001014 Domain of unknown function DUF59; Region: DUF59; cl00941 760142001015 Nucleoside recognition; Region: Gate; pfam07670 760142001016 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 760142001017 Mechanosensitive ion channel; Region: MS_channel; pfam00924 760142001018 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 760142001019 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 760142001020 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 760142001021 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 760142001022 FlgN protein; Region: FlgN; pfam05130 760142001023 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 760142001024 Rod binding protein; Region: Rod-binding; cl01626 760142001025 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 760142001026 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 760142001027 N-acetyl-D-glucosamine binding site [chemical binding]; other site 760142001028 catalytic residue [active] 760142001029 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 760142001030 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 760142001031 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 760142001032 Flagellar L-ring protein; Region: FlgH; cl17277 760142001033 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 760142001034 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 760142001035 active site 760142001036 NTP binding site [chemical binding]; other site 760142001037 metal binding triad [ion binding]; metal-binding site 760142001038 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 760142001039 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 760142001040 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 760142001041 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 760142001042 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 760142001043 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 760142001044 Ligand Binding Site [chemical binding]; other site 760142001045 TIGR00269 family protein; Region: TIGR00269 760142001046 primosome assembly protein PriA; Validated; Region: PRK05580 760142001047 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 760142001048 ATP binding site [chemical binding]; other site 760142001049 putative Mg++ binding site [ion binding]; other site 760142001050 helicase superfamily c-terminal domain; Region: HELICc; smart00490 760142001051 ATP-binding site [chemical binding]; other site 760142001052 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 760142001053 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 760142001054 Domain of unknown function (DUF814); Region: DUF814; pfam05670 760142001055 Colicin V production protein; Region: Colicin_V; pfam02674 760142001056 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 760142001057 Peptidase family M23; Region: Peptidase_M23; pfam01551 760142001058 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 760142001059 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 760142001060 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 760142001061 active site 760142001062 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 760142001063 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 760142001064 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 760142001065 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 760142001066 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 760142001067 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 760142001068 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 760142001069 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 760142001070 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 760142001071 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 760142001072 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 760142001073 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 760142001074 Uncharacterized conserved protein [Function unknown]; Region: COG0062 760142001075 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 760142001076 putative substrate binding site [chemical binding]; other site 760142001077 putative ATP binding site [chemical binding]; other site 760142001078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001079 active site 760142001080 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 760142001081 phosphorylation site [posttranslational modification] 760142001082 intermolecular recognition site; other site 760142001083 dimerization interface [polypeptide binding]; other site 760142001084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001085 active site 760142001086 phosphorylation site [posttranslational modification] 760142001087 intermolecular recognition site; other site 760142001088 dimerization interface [polypeptide binding]; other site 760142001089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001090 metal binding site [ion binding]; metal-binding site 760142001091 active site 760142001092 I-site; other site 760142001093 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 760142001094 dimer interface [polypeptide binding]; other site 760142001095 active site 760142001096 Schiff base residues; other site 760142001097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 760142001098 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 760142001099 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 760142001100 putative active site [active] 760142001101 putative metal binding site [ion binding]; other site 760142001102 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 760142001103 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 760142001104 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142001105 S-adenosylmethionine binding site [chemical binding]; other site 760142001106 PemK-like protein; Region: PemK; pfam02452 760142001107 peptide chain release factor 2; Validated; Region: prfB; PRK00578 760142001108 PCRF domain; Region: PCRF; pfam03462 760142001109 RF-1 domain; Region: RF-1; pfam00472 760142001110 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 760142001111 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 760142001112 dimer interface [polypeptide binding]; other site 760142001113 putative anticodon binding site; other site 760142001114 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 760142001115 motif 1; other site 760142001116 active site 760142001117 motif 2; other site 760142001118 motif 3; other site 760142001119 Cation transport protein; Region: TrkH; cl17365 760142001120 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 760142001121 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 760142001122 TrkA-N domain; Region: TrkA_N; pfam02254 760142001123 TrkA-C domain; Region: TrkA_C; pfam02080 760142001124 TrkA-N domain; Region: TrkA_N; pfam02254 760142001125 TrkA-C domain; Region: TrkA_C; pfam02080 760142001126 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 760142001127 AMP binding site [chemical binding]; other site 760142001128 metal binding site [ion binding]; metal-binding site 760142001129 active site 760142001130 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 760142001131 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 760142001132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142001133 dimer interface [polypeptide binding]; other site 760142001134 conserved gate region; other site 760142001135 putative PBP binding loops; other site 760142001136 ABC-ATPase subunit interface; other site 760142001137 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 760142001138 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 760142001139 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 760142001140 homodimer interface [polypeptide binding]; other site 760142001141 oligonucleotide binding site [chemical binding]; other site 760142001142 adenylosuccinate lyase; Provisional; Region: PRK08470 760142001143 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 760142001144 tetramer interface [polypeptide binding]; other site 760142001145 active site 760142001146 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 760142001147 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 760142001148 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 760142001149 dimer interface [polypeptide binding]; other site 760142001150 phosphorylation site [posttranslational modification] 760142001151 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142001152 ATP binding site [chemical binding]; other site 760142001153 Mg2+ binding site [ion binding]; other site 760142001154 G-X-G motif; other site 760142001155 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 760142001156 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 760142001157 dimerization interface [polypeptide binding]; other site 760142001158 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 760142001159 putative binding surface; other site 760142001160 active site 760142001161 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 760142001162 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 760142001163 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142001164 ATP binding site [chemical binding]; other site 760142001165 Mg2+ binding site [ion binding]; other site 760142001166 G-X-G motif; other site 760142001167 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 760142001168 Response regulator receiver domain; Region: Response_reg; pfam00072 760142001169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001170 active site 760142001171 phosphorylation site [posttranslational modification] 760142001172 intermolecular recognition site; other site 760142001173 dimerization interface [polypeptide binding]; other site 760142001174 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 760142001175 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 760142001176 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 760142001177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001178 active site 760142001179 phosphorylation site [posttranslational modification] 760142001180 intermolecular recognition site; other site 760142001181 dimerization interface [polypeptide binding]; other site 760142001182 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 760142001183 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 760142001184 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 760142001185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001186 active site 760142001187 phosphorylation site [posttranslational modification] 760142001188 intermolecular recognition site; other site 760142001189 dimerization interface [polypeptide binding]; other site 760142001190 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 760142001191 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 760142001192 Walker A/P-loop; other site 760142001193 ATP binding site [chemical binding]; other site 760142001194 Q-loop/lid; other site 760142001195 ABC transporter signature motif; other site 760142001196 Walker B; other site 760142001197 D-loop; other site 760142001198 H-loop/switch region; other site 760142001199 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 760142001200 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 760142001201 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142001202 FeS/SAM binding site; other site 760142001203 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 760142001204 active site 760142001205 putative DNA-binding cleft [nucleotide binding]; other site 760142001206 dimer interface [polypeptide binding]; other site 760142001207 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142001208 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142001209 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 760142001210 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142001211 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 760142001212 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142001213 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 760142001214 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142001215 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 760142001216 NlpC/P60 family; Region: NLPC_P60; pfam00877 760142001217 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 760142001218 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 760142001219 dimer interface [polypeptide binding]; other site 760142001220 active site 760142001221 glycine loop; other site 760142001222 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 760142001223 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 760142001224 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 760142001225 Na binding site [ion binding]; other site 760142001226 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 760142001227 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 760142001228 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 760142001229 putative active site [active] 760142001230 putative CoA binding site [chemical binding]; other site 760142001231 nudix motif; other site 760142001232 metal binding site [ion binding]; metal-binding site 760142001233 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 760142001234 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 760142001235 agmatinase; Region: agmatinase; TIGR01230 760142001236 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 760142001237 putative active site [active] 760142001238 Mn binding site [ion binding]; other site 760142001239 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 760142001240 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 760142001241 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 760142001242 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 760142001243 putative active site; other site 760142001244 putative metal binding residues [ion binding]; other site 760142001245 signature motif; other site 760142001246 putative triphosphate binding site [ion binding]; other site 760142001247 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142001248 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142001249 Zn2+ binding site [ion binding]; other site 760142001250 Mg2+ binding site [ion binding]; other site 760142001251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142001252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001253 metal binding site [ion binding]; metal-binding site 760142001254 active site 760142001255 I-site; other site 760142001256 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 760142001257 homotrimer interaction site [polypeptide binding]; other site 760142001258 putative active site [active] 760142001259 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 760142001260 malonyl-CoA synthase; Validated; Region: PRK07514 760142001261 acyl-activating enzyme (AAE) consensus motif; other site 760142001262 active site 760142001263 AMP binding site [chemical binding]; other site 760142001264 CoA binding site [chemical binding]; other site 760142001265 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 760142001266 nucleotide binding site/active site [active] 760142001267 HIT family signature motif; other site 760142001268 catalytic residue [active] 760142001269 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 760142001270 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 760142001271 DNA binding residues [nucleotide binding] 760142001272 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 760142001273 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 760142001274 active site 760142001275 FMN binding site [chemical binding]; other site 760142001276 substrate binding site [chemical binding]; other site 760142001277 putative catalytic residue [active] 760142001278 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 760142001279 TrkA-N domain; Region: TrkA_N; pfam02254 760142001280 TrkA-C domain; Region: TrkA_C; pfam02080 760142001281 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 760142001282 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 760142001283 Mechanosensitive ion channel; Region: MS_channel; pfam00924 760142001284 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 760142001285 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 760142001286 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 760142001287 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 760142001288 catalytic residue [active] 760142001289 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 760142001290 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 760142001291 trimerization site [polypeptide binding]; other site 760142001292 active site 760142001293 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 760142001294 NifU-like domain; Region: NifU; cl00484 760142001295 Transcriptional regulator; Region: Rrf2; cl17282 760142001296 Rrf2 family protein; Region: rrf2_super; TIGR00738 760142001297 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 760142001298 active site residues [active] 760142001299 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 760142001300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142001301 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 760142001302 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 760142001303 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 760142001304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 760142001305 Homeodomain-like domain; Region: HTH_23; pfam13384 760142001306 Homeodomain-like domain; Region: HTH_32; pfam13565 760142001307 Integrase core domain; Region: rve; pfam00665 760142001308 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142001309 MULE transposase domain; Region: MULE; pfam10551 760142001310 transposase/IS protein; Provisional; Region: PRK09183 760142001311 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142001312 Walker A motif; other site 760142001313 ATP binding site [chemical binding]; other site 760142001314 Walker B motif; other site 760142001315 arginine finger; other site 760142001316 Short C-terminal domain; Region: SHOCT; pfam09851 760142001317 BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure; Region: KU; cd00109 760142001318 trypsin interaction site; other site 760142001319 Helix-turn-helix domain; Region: HTH_17; cl17695 760142001320 Protein of unknown function DUF91; Region: DUF91; cl00709 760142001321 DNA methylase; Region: N6_N4_Mtase; pfam01555 760142001322 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142001323 S-adenosylmethionine binding site [chemical binding]; other site 760142001324 DNA methylase; Region: N6_N4_Mtase; cl17433 760142001325 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142001326 Transposase [DNA replication, recombination, and repair]; Region: COG5421 760142001327 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 760142001328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142001329 S-adenosylmethionine binding site [chemical binding]; other site 760142001330 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 760142001331 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 760142001332 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 760142001333 substrate-cofactor binding pocket; other site 760142001334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142001335 catalytic residue [active] 760142001336 biotin synthase; Region: bioB; TIGR00433 760142001337 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142001338 FeS/SAM binding site; other site 760142001339 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 760142001340 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 760142001341 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 760142001342 inhibitor-cofactor binding pocket; inhibition site 760142001343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142001344 catalytic residue [active] 760142001345 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 760142001346 AAA domain; Region: AAA_26; pfam13500 760142001347 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 760142001348 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 760142001349 minor groove reading motif; other site 760142001350 helix-hairpin-helix signature motif; other site 760142001351 substrate binding pocket [chemical binding]; other site 760142001352 active site 760142001353 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 760142001354 Rubredoxin [Energy production and conversion]; Region: COG1773 760142001355 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 760142001356 iron binding site [ion binding]; other site 760142001357 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 760142001358 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 760142001359 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 760142001360 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 760142001361 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 760142001362 catalytic triad [active] 760142001363 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 760142001364 Ferritin-like domain; Region: Ferritin; pfam00210 760142001365 ferroxidase diiron center [ion binding]; other site 760142001366 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 760142001367 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 760142001368 non-heme iron binding site [ion binding]; other site 760142001369 dimer interface [polypeptide binding]; other site 760142001370 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 760142001371 non-heme iron binding site [ion binding]; other site 760142001372 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 760142001373 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 760142001374 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 760142001375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 760142001376 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 760142001377 shikimate kinase; Reviewed; Region: aroK; PRK00131 760142001378 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 760142001379 ADP binding site [chemical binding]; other site 760142001380 magnesium binding site [ion binding]; other site 760142001381 putative shikimate binding site; other site 760142001382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 760142001383 elongation factor P; Validated; Region: PRK00529 760142001384 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 760142001385 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 760142001386 RNA binding site [nucleotide binding]; other site 760142001387 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 760142001388 RNA binding site [nucleotide binding]; other site 760142001389 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142001390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 760142001391 putative substrate translocation pore; other site 760142001392 Major Facilitator Superfamily; Region: MFS_1; pfam07690 760142001393 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 760142001394 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 760142001395 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 760142001396 Nitrogen regulatory protein P-II; Region: P-II; smart00938 760142001397 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 760142001398 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 760142001399 dimer interface [polypeptide binding]; other site 760142001400 motif 1; other site 760142001401 active site 760142001402 motif 2; other site 760142001403 motif 3; other site 760142001404 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 760142001405 anticodon binding site; other site 760142001406 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 760142001407 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 760142001408 dimer interface [polypeptide binding]; other site 760142001409 anticodon binding site; other site 760142001410 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 760142001411 homodimer interface [polypeptide binding]; other site 760142001412 motif 1; other site 760142001413 active site 760142001414 motif 2; other site 760142001415 GAD domain; Region: GAD; pfam02938 760142001416 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 760142001417 motif 3; other site 760142001418 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 760142001419 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 760142001420 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 760142001421 catalytic residue [active] 760142001422 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 760142001423 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 760142001424 molybdopterin cofactor binding site; other site 760142001425 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 760142001426 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 760142001427 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 760142001428 putative molybdopterin cofactor binding site; other site 760142001429 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 760142001430 4Fe-4S binding domain; Region: Fer4; pfam00037 760142001431 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 760142001432 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 760142001433 Predicted membrane protein [Function unknown]; Region: COG3431 760142001434 prolyl-tRNA synthetase; Provisional; Region: PRK09194 760142001435 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 760142001436 dimer interface [polypeptide binding]; other site 760142001437 motif 1; other site 760142001438 active site 760142001439 motif 2; other site 760142001440 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 760142001441 putative deacylase active site [active] 760142001442 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 760142001443 active site 760142001444 motif 3; other site 760142001445 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 760142001446 anticodon binding site; other site 760142001447 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 760142001448 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 760142001449 oligomer interface [polypeptide binding]; other site 760142001450 putative active site [active] 760142001451 metal binding site [ion binding]; metal-binding site 760142001452 GAF domain; Region: GAF; pfam01590 760142001453 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 760142001454 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142001455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142001456 Zn2+ binding site [ion binding]; other site 760142001457 Mg2+ binding site [ion binding]; other site 760142001458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142001459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001460 metal binding site [ion binding]; metal-binding site 760142001461 active site 760142001462 I-site; other site 760142001463 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 760142001464 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 760142001465 metal binding site [ion binding]; metal-binding site 760142001466 dimer interface [polypeptide binding]; other site 760142001467 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 760142001468 Walker A motif; other site 760142001469 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 760142001470 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 760142001471 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 760142001472 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 760142001473 putative acyl-acceptor binding pocket; other site 760142001474 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 760142001475 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 760142001476 active site 760142001477 motif I; other site 760142001478 motif II; other site 760142001479 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 760142001480 thiamine phosphate binding site [chemical binding]; other site 760142001481 active site 760142001482 pyrophosphate binding site [ion binding]; other site 760142001483 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 760142001484 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142001485 FeS/SAM binding site; other site 760142001486 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 760142001487 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 760142001488 trimer interface [polypeptide binding]; other site 760142001489 dimer interface [polypeptide binding]; other site 760142001490 putative active site [active] 760142001491 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 760142001492 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001493 PAS domain; Region: PAS_9; pfam13426 760142001494 putative active site [active] 760142001495 heme pocket [chemical binding]; other site 760142001496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142001497 dimer interface [polypeptide binding]; other site 760142001498 putative CheW interface [polypeptide binding]; other site 760142001499 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 760142001500 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 760142001501 substrate binding site [chemical binding]; other site 760142001502 ligand binding site [chemical binding]; other site 760142001503 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 760142001504 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 760142001505 substrate binding site [chemical binding]; other site 760142001506 tartrate dehydrogenase; Region: TTC; TIGR02089 760142001507 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 760142001508 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 760142001509 active site 760142001510 metal binding site [ion binding]; metal-binding site 760142001511 homotetramer interface [polypeptide binding]; other site 760142001512 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 760142001513 G1 box; other site 760142001514 GTP/Mg2+ binding site [chemical binding]; other site 760142001515 Switch I region; other site 760142001516 G2 box; other site 760142001517 G3 box; other site 760142001518 Switch II region; other site 760142001519 G4 box; other site 760142001520 G5 box; other site 760142001521 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 760142001522 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142001523 Walker A motif; other site 760142001524 ATP binding site [chemical binding]; other site 760142001525 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 760142001526 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 760142001527 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 760142001528 active site 760142001529 HslU subunit interaction site [polypeptide binding]; other site 760142001530 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 760142001531 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 760142001532 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 760142001533 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142001534 Walker A motif; other site 760142001535 ATP binding site [chemical binding]; other site 760142001536 Walker B motif; other site 760142001537 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 760142001538 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 760142001539 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 760142001540 oligomer interface [polypeptide binding]; other site 760142001541 active site residues [active] 760142001542 trigger factor; Region: tig; TIGR00115 760142001543 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 760142001544 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 760142001545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 760142001546 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 760142001547 NAD(P) binding site [chemical binding]; other site 760142001548 active site 760142001549 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 760142001550 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142001551 S-adenosylmethionine binding site [chemical binding]; other site 760142001552 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 760142001553 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 760142001554 domain interfaces; other site 760142001555 active site 760142001556 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 760142001557 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 760142001558 Walker A/P-loop; other site 760142001559 ATP binding site [chemical binding]; other site 760142001560 Q-loop/lid; other site 760142001561 ABC transporter signature motif; other site 760142001562 Walker B; other site 760142001563 D-loop; other site 760142001564 H-loop/switch region; other site 760142001565 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 760142001566 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 760142001567 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 760142001568 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 760142001569 ribonuclease R; Region: RNase_R; TIGR02063 760142001570 RNB domain; Region: RNB; pfam00773 760142001571 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 760142001572 RNA binding site [nucleotide binding]; other site 760142001573 Domain of unknown function (DUF370); Region: DUF370; cl00898 760142001574 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 760142001575 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 760142001576 catalytic site [active] 760142001577 G-X2-G-X-G-K; other site 760142001578 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 760142001579 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 760142001580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142001581 Zn2+ binding site [ion binding]; other site 760142001582 Mg2+ binding site [ion binding]; other site 760142001583 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 760142001584 synthetase active site [active] 760142001585 NTP binding site [chemical binding]; other site 760142001586 metal binding site [ion binding]; metal-binding site 760142001587 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 760142001588 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 760142001589 rod shape-determining protein MreB; Provisional; Region: PRK13927 760142001590 MreB and similar proteins; Region: MreB_like; cd10225 760142001591 nucleotide binding site [chemical binding]; other site 760142001592 Mg binding site [ion binding]; other site 760142001593 putative protofilament interaction site [polypeptide binding]; other site 760142001594 RodZ interaction site [polypeptide binding]; other site 760142001595 rod shape-determining protein MreC; Provisional; Region: PRK13922 760142001596 rod shape-determining protein MreC; Region: MreC; pfam04085 760142001597 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 760142001598 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 760142001599 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 760142001600 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 760142001601 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 760142001602 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 760142001603 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 760142001604 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 760142001605 Walker A motif; other site 760142001606 ATP binding site [chemical binding]; other site 760142001607 Walker B motif; other site 760142001608 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 760142001609 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 760142001610 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 760142001611 Walker A motif; other site 760142001612 ATP binding site [chemical binding]; other site 760142001613 Walker B motif; other site 760142001614 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 760142001615 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 760142001616 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 760142001617 shikimate binding site; other site 760142001618 NAD(P) binding site [chemical binding]; other site 760142001619 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 760142001620 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 760142001621 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 760142001622 putative active site [active] 760142001623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142001624 Zn2+ binding site [ion binding]; other site 760142001625 Mg2+ binding site [ion binding]; other site 760142001626 HDOD domain; Region: HDOD; pfam08668 760142001627 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 760142001628 Low molecular weight phosphatase family; Region: LMWPc; cd00115 760142001629 active site 760142001630 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 760142001631 GrpE; Region: GrpE; pfam01025 760142001632 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 760142001633 dimer interface [polypeptide binding]; other site 760142001634 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 760142001635 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 760142001636 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 760142001637 nucleotide binding site [chemical binding]; other site 760142001638 NEF interaction site [polypeptide binding]; other site 760142001639 SBD interface [polypeptide binding]; other site 760142001640 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 760142001641 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 760142001642 HSP70 interaction site [polypeptide binding]; other site 760142001643 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 760142001644 substrate binding site [polypeptide binding]; other site 760142001645 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 760142001646 Zn binding sites [ion binding]; other site 760142001647 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 760142001648 dimer interface [polypeptide binding]; other site 760142001649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 760142001650 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 760142001651 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 760142001652 homodimer interface [polypeptide binding]; other site 760142001653 metal binding site [ion binding]; metal-binding site 760142001654 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 760142001655 homodimer interface [polypeptide binding]; other site 760142001656 active site 760142001657 putative chemical substrate binding site [chemical binding]; other site 760142001658 metal binding site [ion binding]; metal-binding site 760142001659 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 760142001660 putative active site [active] 760142001661 putative catalytic site [active] 760142001662 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 760142001663 GAF domain; Region: GAF; pfam01590 760142001664 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001665 PAS domain; Region: PAS_9; pfam13426 760142001666 putative active site [active] 760142001667 heme pocket [chemical binding]; other site 760142001668 GAF domain; Region: GAF_2; pfam13185 760142001669 GAF domain; Region: GAF; pfam01590 760142001670 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001671 PAS domain; Region: PAS_9; pfam13426 760142001672 putative active site [active] 760142001673 heme pocket [chemical binding]; other site 760142001674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001675 metal binding site [ion binding]; metal-binding site 760142001676 active site 760142001677 I-site; other site 760142001678 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 760142001679 PAS domain S-box; Region: sensory_box; TIGR00229 760142001680 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001681 putative active site [active] 760142001682 heme pocket [chemical binding]; other site 760142001683 NAD-dependent deacetylase; Provisional; Region: PRK00481 760142001684 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 760142001685 NAD+ binding site [chemical binding]; other site 760142001686 substrate binding site [chemical binding]; other site 760142001687 Zn binding site [ion binding]; other site 760142001688 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 760142001689 intersubunit interface [polypeptide binding]; other site 760142001690 active site 760142001691 Zn2+ binding site [ion binding]; other site 760142001692 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 760142001693 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 760142001694 DNA primase; Validated; Region: dnaG; PRK05667 760142001695 CHC2 zinc finger; Region: zf-CHC2; pfam01807 760142001696 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 760142001697 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 760142001698 active site 760142001699 metal binding site [ion binding]; metal-binding site 760142001700 interdomain interaction site; other site 760142001701 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 760142001702 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 760142001703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142001704 Walker A/P-loop; other site 760142001705 ATP binding site [chemical binding]; other site 760142001706 Q-loop/lid; other site 760142001707 ABC transporter signature motif; other site 760142001708 Walker B; other site 760142001709 D-loop; other site 760142001710 H-loop/switch region; other site 760142001711 Smr domain; Region: Smr; pfam01713 760142001712 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142001713 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142001714 Zn2+ binding site [ion binding]; other site 760142001715 Mg2+ binding site [ion binding]; other site 760142001716 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 760142001717 homodimer interface [polypeptide binding]; other site 760142001718 AAA domain; Region: AAA_31; pfam13614 760142001719 Walker A motif; other site 760142001720 ATP binding site [chemical binding]; other site 760142001721 hydroxycobalamin binding site [chemical binding]; other site 760142001722 Walker B motif; other site 760142001723 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 760142001724 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 760142001725 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 760142001726 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 760142001727 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 760142001728 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 760142001729 active site 760142001730 phosphorylation site [posttranslational modification] 760142001731 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 760142001732 30S subunit binding site; other site 760142001733 Uncharacterized conserved protein [Function unknown]; Region: COG3334 760142001734 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 760142001735 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 760142001736 HSP70 interaction site [polypeptide binding]; other site 760142001737 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 760142001738 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 760142001739 Walker A motif; other site 760142001740 ATP binding site [chemical binding]; other site 760142001741 Walker B motif; other site 760142001742 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 760142001743 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 760142001744 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 760142001745 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 760142001746 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 760142001747 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 760142001748 Domain of unknown function DUF20; Region: UPF0118; pfam01594 760142001749 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 760142001750 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 760142001751 dimerization interface [polypeptide binding]; other site 760142001752 putative ATP binding site [chemical binding]; other site 760142001753 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 760142001754 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 760142001755 active site 760142001756 substrate binding site [chemical binding]; other site 760142001757 cosubstrate binding site; other site 760142001758 catalytic site [active] 760142001759 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 760142001760 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 760142001761 GatB domain; Region: GatB_Yqey; smart00845 760142001762 dihydroorotase; Validated; Region: pyrC; PRK09357 760142001763 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 760142001764 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 760142001765 active site 760142001766 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 760142001767 Acylphosphatase; Region: Acylphosphatase; pfam00708 760142001768 Tetratricopeptide repeat; Region: TPR_1; pfam00515 760142001769 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 760142001770 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 760142001771 putative active site [active] 760142001772 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 760142001773 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 760142001774 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 760142001775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 760142001776 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 760142001777 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 760142001778 hinge; other site 760142001779 active site 760142001780 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 760142001781 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 760142001782 putative NAD(P) binding site [chemical binding]; other site 760142001783 homodimer interface [polypeptide binding]; other site 760142001784 homotetramer interface [polypeptide binding]; other site 760142001785 active site 760142001786 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 760142001787 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142001788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001789 metal binding site [ion binding]; metal-binding site 760142001790 active site 760142001791 I-site; other site 760142001792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 760142001793 DNA-binding site [nucleotide binding]; DNA binding site 760142001794 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 760142001795 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 760142001796 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 760142001797 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 760142001798 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 760142001799 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 760142001800 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 760142001801 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 760142001802 DctM-like transporters; Region: DctM; pfam06808 760142001803 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 760142001804 NAD-dependent deacetylase; Provisional; Region: PRK00481 760142001805 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 760142001806 NAD+ binding site [chemical binding]; other site 760142001807 substrate binding site [chemical binding]; other site 760142001808 Zn binding site [ion binding]; other site 760142001809 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 760142001810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 760142001811 active site 760142001812 HIGH motif; other site 760142001813 nucleotide binding site [chemical binding]; other site 760142001814 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 760142001815 KMSKS motif; other site 760142001816 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 760142001817 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 760142001818 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 760142001819 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 760142001820 nucleotide binding region [chemical binding]; other site 760142001821 ATP-binding site [chemical binding]; other site 760142001822 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 760142001823 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 760142001824 active site 760142001825 DNA binding site [nucleotide binding] 760142001826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 760142001827 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 760142001828 Dynamin family; Region: Dynamin_N; pfam00350 760142001829 G1 box; other site 760142001830 GTP/Mg2+ binding site [chemical binding]; other site 760142001831 G2 box; other site 760142001832 Switch I region; other site 760142001833 G3 box; other site 760142001834 Switch II region; other site 760142001835 G4 box; other site 760142001836 G5 box; other site 760142001837 Cache domain; Region: Cache_2; cl07034 760142001838 PAS fold; Region: PAS; pfam00989 760142001839 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001840 putative active site [active] 760142001841 heme pocket [chemical binding]; other site 760142001842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142001843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142001844 metal binding site [ion binding]; metal-binding site 760142001845 active site 760142001846 I-site; other site 760142001847 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 760142001848 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 760142001849 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 760142001850 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 760142001851 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 760142001852 active site 760142001853 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 760142001854 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 760142001855 Soluble P-type ATPase [General function prediction only]; Region: COG4087 760142001856 type I citrate synthase; Reviewed; Region: PRK09569 760142001857 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 760142001858 oxalacetate binding site [chemical binding]; other site 760142001859 citrylCoA binding site [chemical binding]; other site 760142001860 coenzyme A binding site [chemical binding]; other site 760142001861 catalytic triad [active] 760142001862 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142001863 FeS/SAM binding site; other site 760142001864 FtsH Extracellular; Region: FtsH_ext; pfam06480 760142001865 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 760142001866 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142001867 Walker A motif; other site 760142001868 ATP binding site [chemical binding]; other site 760142001869 Walker B motif; other site 760142001870 arginine finger; other site 760142001871 Peptidase family M41; Region: Peptidase_M41; pfam01434 760142001872 dihydropteroate synthase; Region: DHPS; TIGR01496 760142001873 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 760142001874 substrate binding pocket [chemical binding]; other site 760142001875 dimer interface [polypeptide binding]; other site 760142001876 inhibitor binding site; inhibition site 760142001877 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 760142001878 dimerization interface [polypeptide binding]; other site 760142001879 putative DNA binding site [nucleotide binding]; other site 760142001880 putative Zn2+ binding site [ion binding]; other site 760142001881 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 760142001882 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 760142001883 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 760142001884 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 760142001885 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 760142001886 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 760142001887 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 760142001888 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 760142001889 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 760142001890 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 760142001891 active site 760142001892 catalytic residues [active] 760142001893 metal binding site [ion binding]; metal-binding site 760142001894 excinuclease ABC subunit B; Provisional; Region: PRK05298 760142001895 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 760142001896 ATP binding site [chemical binding]; other site 760142001897 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 760142001898 nucleotide binding region [chemical binding]; other site 760142001899 ATP-binding site [chemical binding]; other site 760142001900 Ultra-violet resistance protein B; Region: UvrB; pfam12344 760142001901 UvrB/uvrC motif; Region: UVR; pfam02151 760142001902 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 760142001903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142001904 Walker A/P-loop; other site 760142001905 ATP binding site [chemical binding]; other site 760142001906 Q-loop/lid; other site 760142001907 ABC transporter signature motif; other site 760142001908 Walker B; other site 760142001909 D-loop; other site 760142001910 H-loop/switch region; other site 760142001911 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 760142001912 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 760142001913 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 760142001914 O-Antigen ligase; Region: Wzy_C; pfam04932 760142001915 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 760142001916 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 760142001917 active site 760142001918 intersubunit interactions; other site 760142001919 catalytic residue [active] 760142001920 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 760142001921 active site 760142001922 dimerization interface [polypeptide binding]; other site 760142001923 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 760142001924 OstA-like protein; Region: OstA; pfam03968 760142001925 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 760142001926 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 760142001927 HIGH motif; other site 760142001928 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 760142001929 active site 760142001930 KMSKS motif; other site 760142001931 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 760142001932 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 760142001933 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 760142001934 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 760142001935 protein binding site [polypeptide binding]; other site 760142001936 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 760142001937 protein binding site [polypeptide binding]; other site 760142001938 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 760142001939 HlyD family secretion protein; Region: HlyD_3; pfam13437 760142001940 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 760142001941 Active_site [active] 760142001942 Response regulator receiver domain; Region: Response_reg; pfam00072 760142001943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142001944 active site 760142001945 phosphorylation site [posttranslational modification] 760142001946 intermolecular recognition site; other site 760142001947 dimerization interface [polypeptide binding]; other site 760142001948 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142001949 PAS domain; Region: PAS_9; pfam13426 760142001950 putative active site [active] 760142001951 heme pocket [chemical binding]; other site 760142001952 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 760142001953 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 760142001954 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 760142001955 dimer interface [polypeptide binding]; other site 760142001956 PYR/PP interface [polypeptide binding]; other site 760142001957 TPP binding site [chemical binding]; other site 760142001958 substrate binding site [chemical binding]; other site 760142001959 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 760142001960 TPP-binding site; other site 760142001961 4Fe-4S binding domain; Region: Fer4_6; pfam12837 760142001962 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 760142001963 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 760142001964 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142001965 acyl-activating enzyme (AAE) consensus motif; other site 760142001966 AMP binding site [chemical binding]; other site 760142001967 active site 760142001968 CoA binding site [chemical binding]; other site 760142001969 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 760142001970 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 760142001971 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 760142001972 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 760142001973 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 760142001974 ligand binding site [chemical binding]; other site 760142001975 acetyl-CoA synthetase; Provisional; Region: PRK00174 760142001976 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 760142001977 active site 760142001978 CoA binding site [chemical binding]; other site 760142001979 acyl-activating enzyme (AAE) consensus motif; other site 760142001980 AMP binding site [chemical binding]; other site 760142001981 acetate binding site [chemical binding]; other site 760142001982 Domain of unknown function (DUF364); Region: DUF364; pfam04016 760142001983 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 760142001984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142001985 Walker A/P-loop; other site 760142001986 ATP binding site [chemical binding]; other site 760142001987 Q-loop/lid; other site 760142001988 ABC transporter signature motif; other site 760142001989 Walker B; other site 760142001990 D-loop; other site 760142001991 H-loop/switch region; other site 760142001992 TOBE domain; Region: TOBE_2; pfam08402 760142001993 sulfate transport protein; Provisional; Region: cysT; CHL00187 760142001994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142001995 dimer interface [polypeptide binding]; other site 760142001996 conserved gate region; other site 760142001997 putative PBP binding loops; other site 760142001998 ABC-ATPase subunit interface; other site 760142001999 Ion transport protein; Region: Ion_trans; pfam00520 760142002000 Ion channel; Region: Ion_trans_2; pfam07885 760142002001 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 760142002002 TrkA-N domain; Region: TrkA_N; pfam02254 760142002003 TrkA-C domain; Region: TrkA_C; pfam02080 760142002004 Protein of unknown function DUF89; Region: DUF89; cl15397 760142002005 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 760142002006 RNA/DNA hybrid binding site [nucleotide binding]; other site 760142002007 active site 760142002008 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 760142002009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 760142002010 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 760142002011 AAA domain; Region: AAA_33; pfam13671 760142002012 active site 760142002013 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 760142002014 active site 760142002015 hydrophilic channel; other site 760142002016 dimerization interface [polypeptide binding]; other site 760142002017 catalytic residues [active] 760142002018 active site lid [active] 760142002019 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 760142002020 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 760142002021 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 760142002022 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 760142002023 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 760142002024 TPP-binding site [chemical binding]; other site 760142002025 putative dimer interface [polypeptide binding]; other site 760142002026 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 760142002027 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 760142002028 dimer interface [polypeptide binding]; other site 760142002029 PYR/PP interface [polypeptide binding]; other site 760142002030 TPP binding site [chemical binding]; other site 760142002031 substrate binding site [chemical binding]; other site 760142002032 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 760142002033 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 760142002034 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 760142002035 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 760142002036 recombination protein RecR; Reviewed; Region: recR; PRK00076 760142002037 RecR protein; Region: RecR; pfam02132 760142002038 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 760142002039 putative active site [active] 760142002040 putative metal-binding site [ion binding]; other site 760142002041 tetramer interface [polypeptide binding]; other site 760142002042 hypothetical protein; Validated; Region: PRK00153 760142002043 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 760142002044 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142002045 Walker A motif; other site 760142002046 ATP binding site [chemical binding]; other site 760142002047 Walker B motif; other site 760142002048 arginine finger; other site 760142002049 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 760142002050 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 760142002051 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 760142002052 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 760142002053 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 760142002054 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 760142002055 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 760142002056 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 760142002057 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 760142002058 HAMP domain; Region: HAMP; pfam00672 760142002059 dimerization interface [polypeptide binding]; other site 760142002060 dimer interface [polypeptide binding]; other site 760142002061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142002062 dimer interface [polypeptide binding]; other site 760142002063 putative CheW interface [polypeptide binding]; other site 760142002064 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 760142002065 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 760142002066 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 760142002067 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 760142002068 P-loop; other site 760142002069 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 760142002070 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 760142002071 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 760142002072 FHIPEP family; Region: FHIPEP; pfam00771 760142002073 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 760142002074 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 760142002075 Cl- selectivity filter; other site 760142002076 Cl- binding residues [ion binding]; other site 760142002077 pore gating glutamate residue; other site 760142002078 dimer interface [polypeptide binding]; other site 760142002079 Domain of unknown function DUF20; Region: UPF0118; pfam01594 760142002080 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 760142002081 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 760142002082 putative active site [active] 760142002083 putative metal binding site [ion binding]; other site 760142002084 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 760142002085 putative active site [active] 760142002086 Uncharacterized conserved protein [Function unknown]; Region: COG2013 760142002087 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 760142002088 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 760142002089 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 760142002090 Predicted permeases [General function prediction only]; Region: COG0795 760142002091 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 760142002092 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 760142002093 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 760142002094 putative active site [active] 760142002095 catalytic triad [active] 760142002096 putative dimer interface [polypeptide binding]; other site 760142002097 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 760142002098 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 760142002099 putative active site [active] 760142002100 substrate binding site [chemical binding]; other site 760142002101 putative cosubstrate binding site; other site 760142002102 catalytic site [active] 760142002103 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 760142002104 substrate binding site [chemical binding]; other site 760142002105 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 760142002106 active site 760142002107 catalytic residues [active] 760142002108 metal binding site [ion binding]; metal-binding site 760142002109 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 760142002110 putative MPT binding site; other site 760142002111 Competence-damaged protein; Region: CinA; cl00666 760142002112 hypothetical protein; Provisional; Region: PRK10621 760142002113 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 760142002114 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 760142002115 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 760142002116 catalytic residues [active] 760142002117 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 760142002118 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 760142002119 flavoprotein, HI0933 family; Region: TIGR00275 760142002120 Protein of unknown function (DUF541); Region: SIMPL; cl01077 760142002121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 760142002122 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 760142002123 glutamine synthetase, type I; Region: GlnA; TIGR00653 760142002124 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 760142002125 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 760142002126 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 760142002127 GAF domain; Region: GAF; pfam01590 760142002128 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142002129 Walker A motif; other site 760142002130 ATP binding site [chemical binding]; other site 760142002131 Walker B motif; other site 760142002132 arginine finger; other site 760142002133 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142002134 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 760142002135 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 760142002136 Organic solvent tolerance protein; Region: OstA_C; pfam04453 760142002137 Domain of unknown function DUF302; Region: DUF302; pfam03625 760142002138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142002139 dimer interface [polypeptide binding]; other site 760142002140 putative CheW interface [polypeptide binding]; other site 760142002141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142002142 Zn2+ binding site [ion binding]; other site 760142002143 Mg2+ binding site [ion binding]; other site 760142002144 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 760142002145 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 760142002146 DNA methylase; Region: N6_N4_Mtase; pfam01555 760142002147 Type III pantothenate kinase; Region: Pan_kinase; cl17198 760142002148 Lactococcus phage M3 protein; Region: DUF3882; pfam07066 760142002149 TraL protein; Region: TraL; cl06278 760142002150 TraE protein; Region: TraE; cl05060 760142002151 TraK protein; Region: TraK; pfam06586 760142002152 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 760142002153 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 760142002154 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 760142002155 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 760142002156 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 760142002157 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 760142002158 ligand binding site [chemical binding]; other site 760142002159 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 760142002160 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 760142002161 F plasmid transfer operon protein; Region: TraF; pfam13728 760142002162 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 760142002163 catalytic residues [active] 760142002164 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 760142002165 TraU protein; Region: TraU; pfam06834 760142002166 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 760142002167 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 760142002168 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 760142002169 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 760142002170 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 760142002171 DNA binding site [nucleotide binding] 760142002172 AAA domain; Region: AAA_30; pfam13604 760142002173 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 760142002174 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 760142002175 trimer interface [polypeptide binding]; other site 760142002176 active site 760142002177 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 760142002178 IHF - DNA interface [nucleotide binding]; other site 760142002179 IHF dimer interface [polypeptide binding]; other site 760142002180 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 760142002181 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 760142002182 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 760142002183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 760142002184 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 760142002185 Probable transposase; Region: OrfB_IS605; pfam01385 760142002186 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 760142002187 Transposase IS200 like; Region: Y1_Tnp; pfam01797 760142002188 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 760142002189 DNA methylase; Region: N6_N4_Mtase; pfam01555 760142002190 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142002191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002192 metal binding site [ion binding]; metal-binding site 760142002193 active site 760142002194 I-site; other site 760142002195 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 760142002196 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 760142002197 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 760142002198 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142002199 Walker A motif; other site 760142002200 ATP binding site [chemical binding]; other site 760142002201 Walker B motif; other site 760142002202 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 760142002203 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 760142002204 PRTRC system protein D; Region: PRTRC_D; TIGR03739 760142002205 Mg binding site [ion binding]; other site 760142002206 nucleotide binding site [chemical binding]; other site 760142002207 putative protofilament interface [polypeptide binding]; other site 760142002208 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 760142002209 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 760142002210 dimer interface [polypeptide binding]; other site 760142002211 ssDNA binding site [nucleotide binding]; other site 760142002212 tetramer (dimer of dimers) interface [polypeptide binding]; other site 760142002213 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 760142002214 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 760142002215 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 760142002216 thioester formation/cholesterol transfer; other site 760142002217 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 760142002218 thioester formation/cholesterol transfer; other site 760142002219 protein-splicing catalytic site; other site 760142002220 AAA-like domain; Region: AAA_10; pfam12846 760142002221 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 760142002222 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 760142002223 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 760142002224 Walker A motif; other site 760142002225 ATP binding site [chemical binding]; other site 760142002226 Walker B motif; other site 760142002227 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 760142002228 DNA binding site [nucleotide binding] 760142002229 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 760142002230 non-specific DNA binding site [nucleotide binding]; other site 760142002231 salt bridge; other site 760142002232 sequence-specific DNA binding site [nucleotide binding]; other site 760142002233 Domain of unknown function (DUF955); Region: DUF955; pfam06114 760142002234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 760142002235 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 760142002236 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 760142002237 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 760142002238 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 760142002239 active site 760142002240 catalytic residues [active] 760142002241 DNA binding site [nucleotide binding] 760142002242 Int/Topo IB signature motif; other site 760142002243 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 760142002244 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 760142002245 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 760142002246 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 760142002247 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 760142002248 substrate binding site [chemical binding]; other site 760142002249 oxyanion hole (OAH) forming residues; other site 760142002250 trimer interface [polypeptide binding]; other site 760142002251 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 760142002252 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 760142002253 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 760142002254 active site 760142002255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142002256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002257 metal binding site [ion binding]; metal-binding site 760142002258 active site 760142002259 I-site; other site 760142002260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 760142002261 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 760142002262 dimer interface [polypeptide binding]; other site 760142002263 phosphorylation site [posttranslational modification] 760142002264 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142002265 ATP binding site [chemical binding]; other site 760142002266 Mg2+ binding site [ion binding]; other site 760142002267 G-X-G motif; other site 760142002268 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 760142002269 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 760142002270 active site 760142002271 HIGH motif; other site 760142002272 dimer interface [polypeptide binding]; other site 760142002273 KMSKS motif; other site 760142002274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002275 metal binding site [ion binding]; metal-binding site 760142002276 active site 760142002277 I-site; other site 760142002278 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 760142002279 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 760142002280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 760142002281 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 760142002282 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 760142002283 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 760142002284 carboxyltransferase (CT) interaction site; other site 760142002285 biotinylation site [posttranslational modification]; other site 760142002286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 760142002287 PAS domain; Region: PAS_9; pfam13426 760142002288 putative active site [active] 760142002289 heme pocket [chemical binding]; other site 760142002290 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 760142002291 PAS domain S-box; Region: sensory_box; TIGR00229 760142002292 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142002293 putative active site [active] 760142002294 heme pocket [chemical binding]; other site 760142002295 PAS domain; Region: PAS_9; pfam13426 760142002296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142002297 putative active site [active] 760142002298 heme pocket [chemical binding]; other site 760142002299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142002300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002301 metal binding site [ion binding]; metal-binding site 760142002302 active site 760142002303 I-site; other site 760142002304 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 760142002305 Protein of unknown function (DUF763); Region: DUF763; pfam05559 760142002306 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 760142002307 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 760142002308 PYR/PP interface [polypeptide binding]; other site 760142002309 dimer interface [polypeptide binding]; other site 760142002310 TPP binding site [chemical binding]; other site 760142002311 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 760142002312 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 760142002313 TPP-binding site [chemical binding]; other site 760142002314 dimer interface [polypeptide binding]; other site 760142002315 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 760142002316 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 760142002317 putative valine binding site [chemical binding]; other site 760142002318 dimer interface [polypeptide binding]; other site 760142002319 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 760142002320 ketol-acid reductoisomerase; Provisional; Region: PRK05479 760142002321 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 760142002322 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 760142002323 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 760142002324 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 760142002325 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 760142002326 2-isopropylmalate synthase; Validated; Region: PRK00915 760142002327 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 760142002328 active site 760142002329 catalytic residues [active] 760142002330 metal binding site [ion binding]; metal-binding site 760142002331 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 760142002332 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 760142002333 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 760142002334 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 760142002335 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 760142002336 homodimer interface [polypeptide binding]; other site 760142002337 NADP binding site [chemical binding]; other site 760142002338 substrate binding site [chemical binding]; other site 760142002339 ribosome maturation protein RimP; Reviewed; Region: PRK00092 760142002340 Sm and related proteins; Region: Sm_like; cl00259 760142002341 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 760142002342 putative oligomer interface [polypeptide binding]; other site 760142002343 putative RNA binding site [nucleotide binding]; other site 760142002344 transcription termination factor NusA; Region: NusA; TIGR01953 760142002345 NusA N-terminal domain; Region: NusA_N; pfam08529 760142002346 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 760142002347 RNA binding site [nucleotide binding]; other site 760142002348 homodimer interface [polypeptide binding]; other site 760142002349 NusA-like KH domain; Region: KH_5; pfam13184 760142002350 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 760142002351 G-X-X-G motif; other site 760142002352 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 760142002353 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 760142002354 translation initiation factor IF-2; Region: IF-2; TIGR00487 760142002355 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 760142002356 G1 box; other site 760142002357 putative GEF interaction site [polypeptide binding]; other site 760142002358 GTP/Mg2+ binding site [chemical binding]; other site 760142002359 Switch I region; other site 760142002360 G2 box; other site 760142002361 G3 box; other site 760142002362 Switch II region; other site 760142002363 G4 box; other site 760142002364 G5 box; other site 760142002365 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 760142002366 Translation-initiation factor 2; Region: IF-2; pfam11987 760142002367 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 760142002368 Protein of unknown function (DUF503); Region: DUF503; pfam04456 760142002369 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 760142002370 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 760142002371 DHH family; Region: DHH; pfam01368 760142002372 DHHA1 domain; Region: DHHA1; pfam02272 760142002373 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 760142002374 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 760142002375 RNA binding site [nucleotide binding]; other site 760142002376 active site 760142002377 Predicted transcriptional regulators [Transcription]; Region: COG1695 760142002378 Transcriptional regulator PadR-like family; Region: PadR; cl17335 760142002379 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 760142002380 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142002381 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142002382 Zn2+ binding site [ion binding]; other site 760142002383 Mg2+ binding site [ion binding]; other site 760142002384 ABC1 family; Region: ABC1; cl17513 760142002385 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 760142002386 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 760142002387 Flavoprotein; Region: Flavoprotein; pfam02441 760142002388 SAF-like; Region: SAF_2; pfam13144 760142002389 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 760142002390 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 760142002391 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 760142002392 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 760142002393 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 760142002394 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 760142002395 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 760142002396 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 760142002397 Walker A/P-loop; other site 760142002398 ATP binding site [chemical binding]; other site 760142002399 Q-loop/lid; other site 760142002400 ABC transporter signature motif; other site 760142002401 Walker B; other site 760142002402 D-loop; other site 760142002403 H-loop/switch region; other site 760142002404 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 760142002405 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 760142002406 O-Antigen ligase; Region: Wzy_C; pfam04932 760142002407 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 760142002408 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 760142002409 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 760142002410 ligand binding site [chemical binding]; other site 760142002411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142002412 dimer interface [polypeptide binding]; other site 760142002413 conserved gate region; other site 760142002414 ABC-ATPase subunit interface; other site 760142002415 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 760142002416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142002417 Walker A/P-loop; other site 760142002418 ATP binding site [chemical binding]; other site 760142002419 Q-loop/lid; other site 760142002420 ABC transporter signature motif; other site 760142002421 Walker B; other site 760142002422 D-loop; other site 760142002423 H-loop/switch region; other site 760142002424 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 760142002425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142002426 dimer interface [polypeptide binding]; other site 760142002427 conserved gate region; other site 760142002428 ABC-ATPase subunit interface; other site 760142002429 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 760142002430 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 760142002431 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 760142002432 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 760142002433 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 760142002434 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 760142002435 Soluble P-type ATPase [General function prediction only]; Region: COG4087 760142002436 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 760142002437 putative homodimer interface [polypeptide binding]; other site 760142002438 putative homotetramer interface [polypeptide binding]; other site 760142002439 putative allosteric switch controlling residues; other site 760142002440 putative metal binding site [ion binding]; other site 760142002441 putative homodimer-homodimer interface [polypeptide binding]; other site 760142002442 Short C-terminal domain; Region: SHOCT; pfam09851 760142002443 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 760142002444 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 760142002445 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 760142002446 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 760142002447 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 760142002448 dimer interface [polypeptide binding]; other site 760142002449 decamer (pentamer of dimers) interface [polypeptide binding]; other site 760142002450 catalytic triad [active] 760142002451 peroxidatic and resolving cysteines [active] 760142002452 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 760142002453 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 760142002454 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 760142002455 putative active site pocket [active] 760142002456 dimerization interface [polypeptide binding]; other site 760142002457 putative catalytic residue [active] 760142002458 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 760142002459 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142002460 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002461 metal binding site [ion binding]; metal-binding site 760142002462 active site 760142002463 I-site; other site 760142002464 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142002465 Transposase [DNA replication, recombination, and repair]; Region: COG5421 760142002466 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 760142002467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 760142002468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142002469 dimer interface [polypeptide binding]; other site 760142002470 putative CheW interface [polypeptide binding]; other site 760142002471 AIR carboxylase; Region: AIRC; pfam00731 760142002472 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 760142002473 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 760142002474 Walker A/P-loop; other site 760142002475 ATP binding site [chemical binding]; other site 760142002476 Q-loop/lid; other site 760142002477 ABC transporter signature motif; other site 760142002478 Walker B; other site 760142002479 D-loop; other site 760142002480 H-loop/switch region; other site 760142002481 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 760142002482 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 760142002483 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 760142002484 Repair protein; Region: Repair_PSII; pfam04536 760142002485 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 760142002486 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 760142002487 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 760142002488 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 760142002489 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 760142002490 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 760142002491 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 760142002492 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 760142002493 active site 760142002494 Int/Topo IB signature motif; other site 760142002495 DNA binding site [nucleotide binding] 760142002496 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 760142002497 substrate binding site; other site 760142002498 dimer interface; other site 760142002499 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 760142002500 homotrimer interaction site [polypeptide binding]; other site 760142002501 zinc binding site [ion binding]; other site 760142002502 CDP-binding sites; other site 760142002503 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 760142002504 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 760142002505 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 760142002506 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 760142002507 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 760142002508 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 760142002509 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 760142002510 Protein export membrane protein; Region: SecD_SecF; pfam02355 760142002511 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 760142002512 metal binding triad; other site 760142002513 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 760142002514 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 760142002515 metal binding triad; other site 760142002516 Maf-like protein; Region: Maf; pfam02545 760142002517 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 760142002518 active site 760142002519 dimer interface [polypeptide binding]; other site 760142002520 SurA N-terminal domain; Region: SurA_N_3; cl07813 760142002521 periplasmic folding chaperone; Provisional; Region: PRK10788 760142002522 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 760142002523 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 760142002524 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 760142002525 minor groove reading motif; other site 760142002526 helix-hairpin-helix signature motif; other site 760142002527 substrate binding pocket [chemical binding]; other site 760142002528 active site 760142002529 Predicted membrane protein [Function unknown]; Region: COG4818 760142002530 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 760142002531 hypothetical protein; Reviewed; Region: PRK09588 760142002532 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 760142002533 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 760142002534 putative active site [active] 760142002535 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 760142002536 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 760142002537 putative active site [active] 760142002538 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 760142002539 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142002540 dimer interface [polypeptide binding]; other site 760142002541 conserved gate region; other site 760142002542 putative PBP binding loops; other site 760142002543 ABC-ATPase subunit interface; other site 760142002544 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 760142002545 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 760142002546 Methyltransferase domain; Region: Methyltransf_31; pfam13847 760142002547 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142002548 S-adenosylmethionine binding site [chemical binding]; other site 760142002549 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 760142002550 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142002551 FeS/SAM binding site; other site 760142002552 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 760142002553 hypothetical protein; Provisional; Region: PRK08328 760142002554 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 760142002555 ATP binding site [chemical binding]; other site 760142002556 substrate interface [chemical binding]; other site 760142002557 Ubiquitin-like proteins; Region: UBQ; cl00155 760142002558 charged pocket; other site 760142002559 hydrophobic patch; other site 760142002560 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 760142002561 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 760142002562 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 760142002563 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 760142002564 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 760142002565 dimer interface [polypeptide binding]; other site 760142002566 putative functional site; other site 760142002567 putative MPT binding site; other site 760142002568 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 760142002569 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 760142002570 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 760142002571 active site 760142002572 NAD binding site [chemical binding]; other site 760142002573 metal binding site [ion binding]; metal-binding site 760142002574 6-phosphofructokinase; Provisional; Region: PRK03202 760142002575 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 760142002576 active site 760142002577 ADP/pyrophosphate binding site [chemical binding]; other site 760142002578 dimerization interface [polypeptide binding]; other site 760142002579 allosteric effector site; other site 760142002580 fructose-1,6-bisphosphate binding site; other site 760142002581 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 760142002582 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 760142002583 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 760142002584 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 760142002585 dimer interface [polypeptide binding]; other site 760142002586 PYR/PP interface [polypeptide binding]; other site 760142002587 TPP binding site [chemical binding]; other site 760142002588 substrate binding site [chemical binding]; other site 760142002589 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 760142002590 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 760142002591 TPP-binding site [chemical binding]; other site 760142002592 putative dimer interface [polypeptide binding]; other site 760142002593 AAA domain; Region: AAA_32; pfam13654 760142002594 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 760142002595 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 760142002596 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 760142002597 Tetramer interface [polypeptide binding]; other site 760142002598 active site 760142002599 FMN-binding site [chemical binding]; other site 760142002600 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 760142002601 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 760142002602 ADP binding site [chemical binding]; other site 760142002603 magnesium binding site [ion binding]; other site 760142002604 putative shikimate binding site; other site 760142002605 HDOD domain; Region: HDOD; pfam08668 760142002606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 760142002607 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 760142002608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 760142002609 NAD(P) binding site [chemical binding]; other site 760142002610 active site 760142002611 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 760142002612 Initiation factor 2 subunit family; Region: IF-2B; pfam01008 760142002613 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 760142002614 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 760142002615 substrate binding site [chemical binding]; other site 760142002616 oxyanion hole (OAH) forming residues; other site 760142002617 trimer interface [polypeptide binding]; other site 760142002618 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 760142002619 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 760142002620 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 760142002621 P loop; other site 760142002622 GTP binding site [chemical binding]; other site 760142002623 enolase; Provisional; Region: eno; PRK00077 760142002624 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 760142002625 dimer interface [polypeptide binding]; other site 760142002626 metal binding site [ion binding]; metal-binding site 760142002627 substrate binding pocket [chemical binding]; other site 760142002628 Septum formation initiator; Region: DivIC; cl17659 760142002629 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 760142002630 Glucose inhibited division protein A; Region: GIDA; pfam01134 760142002631 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 760142002632 Predicted methyltransferases [General function prediction only]; Region: COG0313 760142002633 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 760142002634 putative SAM binding site [chemical binding]; other site 760142002635 putative homodimer interface [polypeptide binding]; other site 760142002636 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 760142002637 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 760142002638 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 760142002639 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 760142002640 GTP binding site; other site 760142002641 Phospholipid methyltransferase; Region: PEMT; cl17370 760142002642 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 760142002643 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142002644 S-adenosylmethionine binding site [chemical binding]; other site 760142002645 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 760142002646 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 760142002647 dimerization interface [polypeptide binding]; other site 760142002648 ATP binding site [chemical binding]; other site 760142002649 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 760142002650 dimerization interface [polypeptide binding]; other site 760142002651 ATP binding site [chemical binding]; other site 760142002652 Cupin domain; Region: Cupin_2; pfam07883 760142002653 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 760142002654 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 760142002655 GIY-YIG motif/motif A; other site 760142002656 active site 760142002657 catalytic site [active] 760142002658 putative DNA binding site [nucleotide binding]; other site 760142002659 metal binding site [ion binding]; metal-binding site 760142002660 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 760142002661 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 760142002662 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 760142002663 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 760142002664 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 760142002665 carboxyltransferase (CT) interaction site; other site 760142002666 biotinylation site [posttranslational modification]; other site 760142002667 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 760142002668 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 760142002669 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 760142002670 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 760142002671 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 760142002672 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 760142002673 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 760142002674 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 760142002675 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 760142002676 active site 760142002677 substrate binding site [chemical binding]; other site 760142002678 metal binding site [ion binding]; metal-binding site 760142002679 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 760142002680 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142002681 FeS/SAM binding site; other site 760142002682 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 760142002683 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142002684 FeS/SAM binding site; other site 760142002685 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 760142002686 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 760142002687 catalytic residues [active] 760142002688 catalytic nucleophile [active] 760142002689 Recombinase; Region: Recombinase; pfam07508 760142002690 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 760142002691 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 760142002692 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 760142002693 non-specific DNA binding site [nucleotide binding]; other site 760142002694 salt bridge; other site 760142002695 sequence-specific DNA binding site [nucleotide binding]; other site 760142002696 Methyltransferase domain; Region: Methyltransf_26; pfam13659 760142002697 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 760142002698 Protein of unknown function (DUF808); Region: DUF808; cl01002 760142002699 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 760142002700 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 760142002701 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 760142002702 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 760142002703 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 760142002704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 760142002705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142002706 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 760142002707 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142002708 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 760142002709 Walker A motif; other site 760142002710 ATP binding site [chemical binding]; other site 760142002711 Walker B motif; other site 760142002712 arginine finger; other site 760142002713 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 760142002714 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 760142002715 catalytic core [active] 760142002716 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 760142002717 DRTGG domain; Region: DRTGG; pfam07085 760142002718 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 760142002719 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 760142002720 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 760142002721 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 760142002722 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 760142002723 ATP binding site [chemical binding]; other site 760142002724 active site 760142002725 substrate binding site [chemical binding]; other site 760142002726 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 760142002727 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 760142002728 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 760142002729 putative active site [active] 760142002730 catalytic triad [active] 760142002731 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 760142002732 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 760142002733 inhibitor-cofactor binding pocket; inhibition site 760142002734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142002735 catalytic residue [active] 760142002736 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 760142002737 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 760142002738 ATP synthase subunit C; Region: ATP-synt_C; cl00466 760142002739 DNA topoisomerase I; Validated; Region: PRK06599 760142002740 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 760142002741 active site 760142002742 interdomain interaction site; other site 760142002743 putative metal-binding site [ion binding]; other site 760142002744 nucleotide binding site [chemical binding]; other site 760142002745 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 760142002746 domain I; other site 760142002747 DNA binding groove [nucleotide binding] 760142002748 phosphate binding site [ion binding]; other site 760142002749 domain II; other site 760142002750 domain III; other site 760142002751 nucleotide binding site [chemical binding]; other site 760142002752 catalytic site [active] 760142002753 domain IV; other site 760142002754 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 760142002755 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 760142002756 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 760142002757 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 760142002758 DNA protecting protein DprA; Region: dprA; TIGR00732 760142002759 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 760142002760 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142002761 S-adenosylmethionine binding site [chemical binding]; other site 760142002762 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 760142002763 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 760142002764 G1 box; other site 760142002765 GTP/Mg2+ binding site [chemical binding]; other site 760142002766 Switch I region; other site 760142002767 G2 box; other site 760142002768 G3 box; other site 760142002769 Switch II region; other site 760142002770 G4 box; other site 760142002771 G5 box; other site 760142002772 Nucleoside recognition; Region: Gate; pfam07670 760142002773 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 760142002774 Nucleoside recognition; Region: Gate; pfam07670 760142002775 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 760142002776 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 760142002777 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 760142002778 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 760142002779 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 760142002780 NAD(P) binding site [chemical binding]; other site 760142002781 catalytic residues [active] 760142002782 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 760142002783 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 760142002784 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 760142002785 homoserine dehydrogenase; Provisional; Region: PRK06349 760142002786 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 760142002787 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 760142002788 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 760142002789 argininosuccinate lyase; Provisional; Region: PRK00855 760142002790 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 760142002791 active sites [active] 760142002792 tetramer interface [polypeptide binding]; other site 760142002793 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 760142002794 nudix motif; other site 760142002795 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 760142002796 DHH family; Region: DHH; pfam01368 760142002797 DHHA1 domain; Region: DHHA1; pfam02272 760142002798 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 760142002799 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 760142002800 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 760142002801 active site 760142002802 dimer interface [polypeptide binding]; other site 760142002803 effector binding site; other site 760142002804 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 760142002805 TSCPD domain; Region: TSCPD; pfam12637 760142002806 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 760142002807 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 760142002808 active site 760142002809 HIGH motif; other site 760142002810 dimer interface [polypeptide binding]; other site 760142002811 KMSKS motif; other site 760142002812 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 760142002813 RNA binding surface [nucleotide binding]; other site 760142002814 pantothenate kinase; Reviewed; Region: PRK13318 760142002815 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 760142002816 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 760142002817 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 760142002818 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 760142002819 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 760142002820 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 760142002821 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 760142002822 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 760142002823 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 760142002824 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 760142002825 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 760142002826 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 760142002827 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 760142002828 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 760142002829 FlaG protein; Region: FlaG; pfam03646 760142002830 Flagellar protein FliS; Region: FliS; cl00654 760142002831 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 760142002832 trimer interface [polypeptide binding]; other site 760142002833 active site 760142002834 hypothetical protein; Validated; Region: PRK00110 760142002835 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 760142002836 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 760142002837 endonuclease IV; Provisional; Region: PRK01060 760142002838 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 760142002839 AP (apurinic/apyrimidinic) site pocket; other site 760142002840 DNA interaction; other site 760142002841 Metal-binding active site; metal-binding site 760142002842 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 760142002843 PAS domain; Region: PAS; smart00091 760142002844 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 760142002845 dimer interface [polypeptide binding]; other site 760142002846 phosphorylation site [posttranslational modification] 760142002847 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142002848 ATP binding site [chemical binding]; other site 760142002849 Mg2+ binding site [ion binding]; other site 760142002850 G-X-G motif; other site 760142002851 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 760142002852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142002853 active site 760142002854 phosphorylation site [posttranslational modification] 760142002855 intermolecular recognition site; other site 760142002856 dimerization interface [polypeptide binding]; other site 760142002857 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 760142002858 DNA binding site [nucleotide binding] 760142002859 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 760142002860 PhoU domain; Region: PhoU; pfam01895 760142002861 PhoU domain; Region: PhoU; pfam01895 760142002862 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 760142002863 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 760142002864 Walker A/P-loop; other site 760142002865 ATP binding site [chemical binding]; other site 760142002866 Q-loop/lid; other site 760142002867 ABC transporter signature motif; other site 760142002868 Walker B; other site 760142002869 D-loop; other site 760142002870 H-loop/switch region; other site 760142002871 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 760142002872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142002873 dimer interface [polypeptide binding]; other site 760142002874 conserved gate region; other site 760142002875 putative PBP binding loops; other site 760142002876 ABC-ATPase subunit interface; other site 760142002877 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 760142002878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142002879 dimer interface [polypeptide binding]; other site 760142002880 conserved gate region; other site 760142002881 putative PBP binding loops; other site 760142002882 ABC-ATPase subunit interface; other site 760142002883 PBP superfamily domain; Region: PBP_like_2; cl17296 760142002884 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 760142002885 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 760142002886 molybdopterin cofactor binding site; other site 760142002887 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 760142002888 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 760142002889 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 760142002890 Isochorismatase family; Region: Isochorismatase; pfam00857 760142002891 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 760142002892 catalytic triad [active] 760142002893 dimer interface [polypeptide binding]; other site 760142002894 conserved cis-peptide bond; other site 760142002895 exopolyphosphatase; Region: exo_poly_only; TIGR03706 760142002896 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 760142002897 Phosphate transporter family; Region: PHO4; pfam01384 760142002898 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 760142002899 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 760142002900 Domain of unknown function DUF59; Region: DUF59; cl00941 760142002901 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 760142002902 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 760142002903 Walker A motif; other site 760142002904 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 760142002905 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 760142002906 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 760142002907 homotetramer interface [polypeptide binding]; other site 760142002908 ligand binding site [chemical binding]; other site 760142002909 catalytic site [active] 760142002910 NAD binding site [chemical binding]; other site 760142002911 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 760142002912 S-adenosylmethionine synthetase; Validated; Region: PRK05250 760142002913 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 760142002914 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 760142002915 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 760142002916 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142002917 FeS/SAM binding site; other site 760142002918 HemN C-terminal domain; Region: HemN_C; pfam06969 760142002919 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 760142002920 GIY-YIG motif/motif A; other site 760142002921 putative active site [active] 760142002922 putative metal binding site [ion binding]; other site 760142002923 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 760142002924 diiron binding motif [ion binding]; other site 760142002925 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 760142002926 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 760142002927 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 760142002928 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 760142002929 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 760142002930 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142002931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 760142002932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142002933 dimer interface [polypeptide binding]; other site 760142002934 putative CheW interface [polypeptide binding]; other site 760142002935 Protein of unknown function (DUF330); Region: DUF330; cl01135 760142002936 mce related protein; Region: MCE; pfam02470 760142002937 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 760142002938 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 760142002939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142002940 Walker A/P-loop; other site 760142002941 ATP binding site [chemical binding]; other site 760142002942 Q-loop/lid; other site 760142002943 ABC transporter signature motif; other site 760142002944 Walker B; other site 760142002945 D-loop; other site 760142002946 H-loop/switch region; other site 760142002947 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 760142002948 Permease; Region: Permease; pfam02405 760142002949 EamA-like transporter family; Region: EamA; pfam00892 760142002950 EamA-like transporter family; Region: EamA; pfam00892 760142002951 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 760142002952 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142002953 MULE transposase domain; Region: MULE; pfam10551 760142002954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142002955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142002956 metal binding site [ion binding]; metal-binding site 760142002957 active site 760142002958 I-site; other site 760142002959 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142002960 S-adenosylmethionine binding site [chemical binding]; other site 760142002961 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 760142002962 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 760142002963 ATP-grasp domain; Region: ATP-grasp_4; cl17255 760142002964 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 760142002965 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 760142002966 catalytic loop [active] 760142002967 iron binding site [ion binding]; other site 760142002968 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 760142002969 Uncharacterized conserved protein [Function unknown]; Region: COG4095 760142002970 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 760142002971 putative catalytic site [active] 760142002972 putative phosphate binding site [ion binding]; other site 760142002973 active site 760142002974 metal binding site A [ion binding]; metal-binding site 760142002975 DNA binding site [nucleotide binding] 760142002976 putative AP binding site [nucleotide binding]; other site 760142002977 putative metal binding site B [ion binding]; other site 760142002978 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 760142002979 motif 1; other site 760142002980 dimer interface [polypeptide binding]; other site 760142002981 active site 760142002982 motif 2; other site 760142002983 motif 3; other site 760142002984 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 760142002985 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 760142002986 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 760142002987 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 760142002988 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 760142002989 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 760142002990 active site 760142002991 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 760142002992 PLD-like domain; Region: PLDc_2; pfam13091 760142002993 putative active site [active] 760142002994 catalytic site [active] 760142002995 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 760142002996 GTP-binding protein LepA; Provisional; Region: PRK05433 760142002997 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 760142002998 G1 box; other site 760142002999 putative GEF interaction site [polypeptide binding]; other site 760142003000 GTP/Mg2+ binding site [chemical binding]; other site 760142003001 Switch I region; other site 760142003002 G2 box; other site 760142003003 G3 box; other site 760142003004 Switch II region; other site 760142003005 G4 box; other site 760142003006 G5 box; other site 760142003007 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 760142003008 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 760142003009 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 760142003010 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 760142003011 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 760142003012 Catalytic site [active] 760142003013 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 760142003014 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 760142003015 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 760142003016 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 760142003017 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 760142003018 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 760142003019 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 760142003020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 760142003021 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 760142003022 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 760142003023 DNA binding residues [nucleotide binding] 760142003024 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 760142003025 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 760142003026 nucleotide binding pocket [chemical binding]; other site 760142003027 K-X-D-G motif; other site 760142003028 catalytic site [active] 760142003029 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 760142003030 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 760142003031 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 760142003032 helix-hairpin-helix signature motif; other site 760142003033 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 760142003034 Dimer interface [polypeptide binding]; other site 760142003035 BRCT sequence motif; other site 760142003036 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 760142003037 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 760142003038 putative active site [active] 760142003039 putative metal binding site [ion binding]; other site 760142003040 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 760142003041 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 760142003042 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 760142003043 HSP70 interaction site [polypeptide binding]; other site 760142003044 TPR repeat; Region: TPR_11; pfam13414 760142003045 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142003046 binding surface 760142003047 TPR motif; other site 760142003048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 760142003049 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 760142003050 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 760142003051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 760142003052 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 760142003053 DNA binding residues [nucleotide binding] 760142003054 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 760142003055 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 760142003056 active site 760142003057 HIGH motif; other site 760142003058 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 760142003059 KMSKS motif; other site 760142003060 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 760142003061 tRNA binding surface [nucleotide binding]; other site 760142003062 anticodon binding site; other site 760142003063 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 760142003064 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 760142003065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 760142003066 Tetratricopeptide repeat; Region: TPR_6; pfam13174 760142003067 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 760142003068 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 760142003069 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 760142003070 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 760142003071 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 760142003072 substrate binding pocket [chemical binding]; other site 760142003073 dimer interface [polypeptide binding]; other site 760142003074 inhibitor binding site; inhibition site 760142003075 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 760142003076 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 760142003077 B12 binding site [chemical binding]; other site 760142003078 cobalt ligand [ion binding]; other site 760142003079 Response regulator receiver domain; Region: Response_reg; pfam00072 760142003080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142003081 active site 760142003082 phosphorylation site [posttranslational modification] 760142003083 intermolecular recognition site; other site 760142003084 dimerization interface [polypeptide binding]; other site 760142003085 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003086 Walker A motif; other site 760142003087 ATP binding site [chemical binding]; other site 760142003088 Walker B motif; other site 760142003089 arginine finger; other site 760142003090 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 760142003091 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 760142003092 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 760142003093 putative active site [active] 760142003094 redox center [active] 760142003095 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 760142003096 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 760142003097 glycogen branching enzyme; Provisional; Region: PRK12313 760142003098 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 760142003099 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 760142003100 active site 760142003101 catalytic site [active] 760142003102 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 760142003103 glycogen synthase; Provisional; Region: glgA; PRK00654 760142003104 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 760142003105 ADP-binding pocket [chemical binding]; other site 760142003106 homodimer interface [polypeptide binding]; other site 760142003107 D-allose kinase; Provisional; Region: PRK09698 760142003108 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 760142003109 nucleotide binding site [chemical binding]; other site 760142003110 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 760142003111 glycogen synthase; Provisional; Region: glgA; PRK00654 760142003112 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 760142003113 ADP-binding pocket [chemical binding]; other site 760142003114 homodimer interface [polypeptide binding]; other site 760142003115 ADP-glucose phosphorylase; Region: PLN02643 760142003116 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 760142003117 nucleotide binding site/active site [active] 760142003118 HIT family signature motif; other site 760142003119 catalytic residue [active] 760142003120 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 760142003121 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 760142003122 active site 760142003123 catalytic site [active] 760142003124 homodimer interface [polypeptide binding]; other site 760142003125 Lid 1; other site 760142003126 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 760142003127 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 760142003128 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 760142003129 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 760142003130 putative active site [active] 760142003131 catalytic site [active] 760142003132 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 760142003133 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 760142003134 active site 760142003135 Substrate binding site; other site 760142003136 Mg++ binding site; other site 760142003137 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 760142003138 putative trimer interface [polypeptide binding]; other site 760142003139 putative CoA binding site [chemical binding]; other site 760142003140 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 760142003141 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 760142003142 active site 760142003143 substrate binding site [chemical binding]; other site 760142003144 metal binding site [ion binding]; metal-binding site 760142003145 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142003146 MULE transposase domain; Region: MULE; pfam10551 760142003147 transposase/IS protein; Provisional; Region: PRK09183 760142003148 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003149 Walker A motif; other site 760142003150 ATP binding site [chemical binding]; other site 760142003151 Walker B motif; other site 760142003152 arginine finger; other site 760142003153 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 760142003154 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 760142003155 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 760142003156 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 760142003157 active site 760142003158 HIGH motif; other site 760142003159 KMSK motif region; other site 760142003160 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 760142003161 tRNA binding surface [nucleotide binding]; other site 760142003162 anticodon binding site; other site 760142003163 Sporulation related domain; Region: SPOR; pfam05036 760142003164 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 760142003165 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 760142003166 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 760142003167 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 760142003168 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 760142003169 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 760142003170 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 760142003171 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 760142003172 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 760142003173 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 760142003174 ATP-grasp domain; Region: ATP-grasp_4; cl17255 760142003175 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 760142003176 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 760142003177 cell division protein FtsA; Region: ftsA; TIGR01174 760142003178 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 760142003179 nucleotide binding site [chemical binding]; other site 760142003180 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 760142003181 Cell division protein FtsA; Region: FtsA; pfam14450 760142003182 cell division protein FtsZ; Validated; Region: PRK09330 760142003183 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 760142003184 nucleotide binding site [chemical binding]; other site 760142003185 SulA interaction site; other site 760142003186 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 760142003187 Protein of unknown function (DUF507); Region: DUF507; cl01112 760142003188 Protein of unknown function (DUF507); Region: DUF507; cl01112 760142003189 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 760142003190 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 760142003191 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 760142003192 catalytic site [active] 760142003193 subunit interface [polypeptide binding]; other site 760142003194 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 760142003195 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 760142003196 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142003197 S-adenosylmethionine binding site [chemical binding]; other site 760142003198 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 760142003199 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 760142003200 TPP-binding site; other site 760142003201 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 760142003202 PYR/PP interface [polypeptide binding]; other site 760142003203 dimer interface [polypeptide binding]; other site 760142003204 TPP binding site [chemical binding]; other site 760142003205 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 760142003206 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 760142003207 Tetratricopeptide repeat; Region: TPR_6; pfam13174 760142003208 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 760142003209 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 760142003210 ligand binding site [chemical binding]; other site 760142003211 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 760142003212 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 760142003213 ligand binding site [chemical binding]; other site 760142003214 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 760142003215 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 760142003216 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 760142003217 TonB C terminal; Region: TonB_2; pfam13103 760142003218 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 760142003219 TolR protein; Region: tolR; TIGR02801 760142003220 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 760142003221 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 760142003222 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 760142003223 gamma subunit interface [polypeptide binding]; other site 760142003224 epsilon subunit interface [polypeptide binding]; other site 760142003225 LBP interface [polypeptide binding]; other site 760142003226 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 760142003227 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 760142003228 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 760142003229 alpha subunit interaction interface [polypeptide binding]; other site 760142003230 Walker A motif; other site 760142003231 ATP binding site [chemical binding]; other site 760142003232 Walker B motif; other site 760142003233 inhibitor binding site; inhibition site 760142003234 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 760142003235 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 760142003236 core domain interface [polypeptide binding]; other site 760142003237 delta subunit interface [polypeptide binding]; other site 760142003238 epsilon subunit interface [polypeptide binding]; other site 760142003239 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 760142003240 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 760142003241 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 760142003242 beta subunit interaction interface [polypeptide binding]; other site 760142003243 Walker A motif; other site 760142003244 ATP binding site [chemical binding]; other site 760142003245 Walker B motif; other site 760142003246 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 760142003247 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 760142003248 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 760142003249 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 760142003250 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 760142003251 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 760142003252 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 760142003253 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 760142003254 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 760142003255 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 760142003256 transmembrane helices; other site 760142003257 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 760142003258 ParB-like nuclease domain; Region: ParB; smart00470 760142003259 KorB domain; Region: KorB; pfam08535 760142003260 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 760142003261 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 760142003262 P-loop; other site 760142003263 Magnesium ion binding site [ion binding]; other site 760142003264 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 760142003265 Magnesium ion binding site [ion binding]; other site 760142003266 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 760142003267 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 760142003268 active site 760142003269 homodimer interface [polypeptide binding]; other site 760142003270 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 760142003271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142003272 Walker A/P-loop; other site 760142003273 ATP binding site [chemical binding]; other site 760142003274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 760142003275 ABC transporter signature motif; other site 760142003276 Walker B; other site 760142003277 D-loop; other site 760142003278 H-loop/switch region; other site 760142003279 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 760142003280 ATP-NAD kinase; Region: NAD_kinase; pfam01513 760142003281 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 760142003282 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 760142003283 Walker A/P-loop; other site 760142003284 ATP binding site [chemical binding]; other site 760142003285 Q-loop/lid; other site 760142003286 ABC transporter signature motif; other site 760142003287 Walker B; other site 760142003288 D-loop; other site 760142003289 H-loop/switch region; other site 760142003290 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 760142003291 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 760142003292 Walker A/P-loop; other site 760142003293 ATP binding site [chemical binding]; other site 760142003294 Q-loop/lid; other site 760142003295 ABC transporter signature motif; other site 760142003296 Walker B; other site 760142003297 D-loop; other site 760142003298 H-loop/switch region; other site 760142003299 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 760142003300 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 760142003301 TM-ABC transporter signature motif; other site 760142003302 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142003303 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 760142003304 TM-ABC transporter signature motif; other site 760142003305 RNase III inhibitor; Provisional; Region: PRK00431 760142003306 ADP-ribose binding site [chemical binding]; other site 760142003307 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 760142003308 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 760142003309 active site 760142003310 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 760142003311 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 760142003312 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 760142003313 putative active site [active] 760142003314 putative metal binding site [ion binding]; other site 760142003315 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 760142003316 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 760142003317 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 760142003318 active site 760142003319 HIGH motif; other site 760142003320 nucleotide binding site [chemical binding]; other site 760142003321 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 760142003322 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 760142003323 active site 760142003324 KMSKS motif; other site 760142003325 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 760142003326 tRNA binding surface [nucleotide binding]; other site 760142003327 anticodon binding site; other site 760142003328 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 760142003329 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 760142003330 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 760142003331 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 760142003332 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 760142003333 dimer interface [polypeptide binding]; other site 760142003334 PYR/PP interface [polypeptide binding]; other site 760142003335 TPP binding site [chemical binding]; other site 760142003336 substrate binding site [chemical binding]; other site 760142003337 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 760142003338 TPP-binding site; other site 760142003339 4Fe-4S binding domain; Region: Fer4; cl02805 760142003340 4Fe-4S binding domain; Region: Fer4; pfam00037 760142003341 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 760142003342 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 760142003343 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 760142003344 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003345 Walker A motif; other site 760142003346 ATP binding site [chemical binding]; other site 760142003347 Walker B motif; other site 760142003348 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 760142003349 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 760142003350 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 760142003351 Interdomain contacts; other site 760142003352 Cytokine receptor motif; other site 760142003353 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 760142003354 Interdomain contacts; other site 760142003355 Cytokine receptor motif; other site 760142003356 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 760142003357 Interdomain contacts; other site 760142003358 Cytokine receptor motif; other site 760142003359 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 760142003360 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 760142003361 active site 760142003362 Transglycosylase; Region: Transgly; pfam00912 760142003363 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 760142003364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 760142003365 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142003366 binding surface 760142003367 TPR motif; other site 760142003368 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142003369 binding surface 760142003370 TPR motif; other site 760142003371 aspartate aminotransferase; Provisional; Region: PRK05764 760142003372 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142003373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142003374 homodimer interface [polypeptide binding]; other site 760142003375 catalytic residue [active] 760142003376 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 760142003377 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 760142003378 active site 760142003379 (T/H)XGH motif; other site 760142003380 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 760142003381 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142003382 S-adenosylmethionine binding site [chemical binding]; other site 760142003383 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 760142003384 Peptidase family U32; Region: Peptidase_U32; pfam01136 760142003385 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 760142003386 metal-dependent hydrolase; Provisional; Region: PRK00685 760142003387 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 760142003388 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 760142003389 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 760142003390 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 760142003391 MraW methylase family; Region: Methyltransf_5; cl17771 760142003392 cell division protein MraZ; Reviewed; Region: PRK00326 760142003393 MraZ protein; Region: MraZ; pfam02381 760142003394 MraZ protein; Region: MraZ; pfam02381 760142003395 cheY-homologous receiver domain; Region: REC; smart00448 760142003396 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 760142003397 G1 box; other site 760142003398 GTP/Mg2+ binding site [chemical binding]; other site 760142003399 G2 box; other site 760142003400 Switch I region; other site 760142003401 G3 box; other site 760142003402 Switch II region; other site 760142003403 G4 box; other site 760142003404 G5 box; other site 760142003405 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 760142003406 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 760142003407 catalytic residues [active] 760142003408 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 760142003409 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142003410 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 760142003411 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 760142003412 ABC-ATPase subunit interface; other site 760142003413 dimer interface [polypeptide binding]; other site 760142003414 putative PBP binding regions; other site 760142003415 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 760142003416 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 760142003417 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 760142003418 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 760142003419 intersubunit interface [polypeptide binding]; other site 760142003420 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 760142003421 active site 760142003422 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 760142003423 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 760142003424 cytidylate kinase; Provisional; Region: cmk; PRK00023 760142003425 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 760142003426 CMP-binding site; other site 760142003427 The sites determining sugar specificity; other site 760142003428 prephenate dehydrogenase; Validated; Region: PRK08507 760142003429 Prephenate dehydrogenase; Region: PDH; pfam02153 760142003430 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 760142003431 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142003432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142003433 homodimer interface [polypeptide binding]; other site 760142003434 catalytic residue [active] 760142003435 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142003436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142003437 metal binding site [ion binding]; metal-binding site 760142003438 active site 760142003439 I-site; other site 760142003440 HTH domain; Region: HTH_11; pfam08279 760142003441 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 760142003442 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 760142003443 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 760142003444 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 760142003445 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 760142003446 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 760142003447 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 760142003448 putative MPT binding site; other site 760142003449 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 760142003450 IHF dimer interface [polypeptide binding]; other site 760142003451 IHF - DNA interface [nucleotide binding]; other site 760142003452 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 760142003453 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 760142003454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142003455 catalytic residue [active] 760142003456 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 760142003457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142003458 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 760142003459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 760142003460 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 760142003461 dimer interface [polypeptide binding]; other site 760142003462 substrate binding site [chemical binding]; other site 760142003463 metal binding site [ion binding]; metal-binding site 760142003464 membrane ATPase/protein kinase; Provisional; Region: PRK09435 760142003465 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 760142003466 Walker A; other site 760142003467 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 760142003468 G4 box; other site 760142003469 G5 box; other site 760142003470 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 760142003471 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 760142003472 active site 760142003473 substrate binding site [chemical binding]; other site 760142003474 coenzyme B12 binding site [chemical binding]; other site 760142003475 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 760142003476 B12 binding site [chemical binding]; other site 760142003477 cobalt ligand [ion binding]; other site 760142003478 Transglycosylase SLT domain; Region: SLT_2; pfam13406 760142003479 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 760142003480 N-acetyl-D-glucosamine binding site [chemical binding]; other site 760142003481 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 760142003482 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 760142003483 purine monophosphate binding site [chemical binding]; other site 760142003484 dimer interface [polypeptide binding]; other site 760142003485 putative catalytic residues [active] 760142003486 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 760142003487 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 760142003488 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 760142003489 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 760142003490 Substrate binding site; other site 760142003491 Mg++ binding site; other site 760142003492 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 760142003493 active site 760142003494 substrate binding site [chemical binding]; other site 760142003495 CoA binding site [chemical binding]; other site 760142003496 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 760142003497 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 760142003498 Cl- selectivity filter; other site 760142003499 Cl- binding residues [ion binding]; other site 760142003500 pore gating glutamate residue; other site 760142003501 dimer interface [polypeptide binding]; other site 760142003502 FOG: CBS domain [General function prediction only]; Region: COG0517 760142003503 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 760142003504 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 760142003505 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 760142003506 glutaminase active site [active] 760142003507 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 760142003508 dimer interface [polypeptide binding]; other site 760142003509 active site 760142003510 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 760142003511 dimer interface [polypeptide binding]; other site 760142003512 active site 760142003513 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 760142003514 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 760142003515 Cl- selectivity filter; other site 760142003516 Cl- binding residues [ion binding]; other site 760142003517 pore gating glutamate residue; other site 760142003518 dimer interface [polypeptide binding]; other site 760142003519 FOG: CBS domain [General function prediction only]; Region: COG0517 760142003520 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 760142003521 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 760142003522 Part of AAA domain; Region: AAA_19; pfam13245 760142003523 AAA domain; Region: AAA_14; pfam13173 760142003524 Family description; Region: UvrD_C_2; pfam13538 760142003525 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 760142003526 Glycoprotease family; Region: Peptidase_M22; pfam00814 760142003527 Uncharacterized conserved protein [Function unknown]; Region: COG4198 760142003528 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 760142003529 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 760142003530 active site 760142003531 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 760142003532 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 760142003533 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 760142003534 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 760142003535 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 760142003536 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 760142003537 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 760142003538 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 760142003539 tetramerization interface [polypeptide binding]; other site 760142003540 active site 760142003541 pantoate--beta-alanine ligase; Region: panC; TIGR00018 760142003542 Pantoate-beta-alanine ligase; Region: PanC; cd00560 760142003543 active site 760142003544 ATP-binding site [chemical binding]; other site 760142003545 pantoate-binding site; other site 760142003546 HXXH motif; other site 760142003547 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 760142003548 oligomerization interface [polypeptide binding]; other site 760142003549 active site 760142003550 metal binding site [ion binding]; metal-binding site 760142003551 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 760142003552 catalytic center binding site [active] 760142003553 ATP binding site [chemical binding]; other site 760142003554 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 760142003555 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142003556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142003557 homodimer interface [polypeptide binding]; other site 760142003558 catalytic residue [active] 760142003559 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 760142003560 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142003561 Winged helix-turn helix; Region: HTH_29; pfam13551 760142003562 Integrase core domain; Region: rve; pfam00665 760142003563 Integrase core domain; Region: rve_3; cl15866 760142003564 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 760142003565 pyrroline-5-carboxylate reductase; Region: PLN02688 760142003566 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 760142003567 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 760142003568 DNA binding residues [nucleotide binding] 760142003569 putative dimer interface [polypeptide binding]; other site 760142003570 chaperone protein DnaJ; Provisional; Region: PRK14299 760142003571 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 760142003572 HSP70 interaction site [polypeptide binding]; other site 760142003573 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 760142003574 substrate binding site [polypeptide binding]; other site 760142003575 dimer interface [polypeptide binding]; other site 760142003576 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 760142003577 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 760142003578 putative dimer interface [polypeptide binding]; other site 760142003579 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 760142003580 Clp amino terminal domain; Region: Clp_N; pfam02861 760142003581 Clp amino terminal domain; Region: Clp_N; pfam02861 760142003582 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003583 Walker A motif; other site 760142003584 ATP binding site [chemical binding]; other site 760142003585 Walker B motif; other site 760142003586 arginine finger; other site 760142003587 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003588 Walker A motif; other site 760142003589 ATP binding site [chemical binding]; other site 760142003590 Walker B motif; other site 760142003591 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 760142003592 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 760142003593 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 760142003594 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 760142003595 High-affinity nickel-transport protein; Region: NicO; cl00964 760142003596 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 760142003597 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 760142003598 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 760142003599 active site 760142003600 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 760142003601 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 760142003602 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 760142003603 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 760142003604 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 760142003605 putative substrate-binding site; other site 760142003606 nickel binding site [ion binding]; other site 760142003607 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 760142003608 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 760142003609 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 760142003610 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 760142003611 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 760142003612 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 760142003613 PA14 domain; Region: PA14; cl08459 760142003614 OmpA family; Region: OmpA; pfam00691 760142003615 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 760142003616 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 760142003617 EamA-like transporter family; Region: EamA; pfam00892 760142003618 EamA-like transporter family; Region: EamA; pfam00892 760142003619 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 760142003620 EamA-like transporter family; Region: EamA; pfam00892 760142003621 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 760142003622 EamA-like transporter family; Region: EamA; pfam00892 760142003623 Transcriptional regulators [Transcription]; Region: GntR; COG1802 760142003624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 760142003625 DNA-binding site [nucleotide binding]; DNA binding site 760142003626 FCD domain; Region: FCD; pfam07729 760142003627 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 760142003628 elongation factor G; Reviewed; Region: PRK12740 760142003629 G1 box; other site 760142003630 putative GEF interaction site [polypeptide binding]; other site 760142003631 GTP/Mg2+ binding site [chemical binding]; other site 760142003632 Switch I region; other site 760142003633 G2 box; other site 760142003634 G3 box; other site 760142003635 Switch II region; other site 760142003636 G4 box; other site 760142003637 G5 box; other site 760142003638 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 760142003639 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 760142003640 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 760142003641 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 760142003642 Ligand Binding Site [chemical binding]; other site 760142003643 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 760142003644 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 760142003645 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 760142003646 putative active site [active] 760142003647 catalytic residue [active] 760142003648 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 760142003649 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 760142003650 5S rRNA interface [nucleotide binding]; other site 760142003651 CTC domain interface [polypeptide binding]; other site 760142003652 L16 interface [polypeptide binding]; other site 760142003653 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 760142003654 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 760142003655 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 760142003656 active site 760142003657 SpoVG; Region: SpoVG; pfam04026 760142003658 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 760142003659 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 760142003660 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 760142003661 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 760142003662 active site 760142003663 putative substrate binding pocket [chemical binding]; other site 760142003664 purine nucleoside phosphorylase; Provisional; Region: PRK08202 760142003665 FAD binding domain; Region: FAD_binding_4; pfam01565 760142003666 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 760142003667 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 760142003668 Cysteine-rich domain; Region: CCG; pfam02754 760142003669 Cysteine-rich domain; Region: CCG; pfam02754 760142003670 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 760142003671 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 760142003672 active site 760142003673 tetramer interface; other site 760142003674 seryl-tRNA synthetase; Provisional; Region: PRK05431 760142003675 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 760142003676 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 760142003677 dimer interface [polypeptide binding]; other site 760142003678 active site 760142003679 motif 1; other site 760142003680 motif 2; other site 760142003681 motif 3; other site 760142003682 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 760142003683 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 760142003684 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 760142003685 GAF domain; Region: GAF_2; pfam13185 760142003686 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142003687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142003688 Zn2+ binding site [ion binding]; other site 760142003689 Mg2+ binding site [ion binding]; other site 760142003690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142003691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142003692 metal binding site [ion binding]; metal-binding site 760142003693 active site 760142003694 I-site; other site 760142003695 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 760142003696 CARDB; Region: CARDB; pfam07705 760142003697 CARDB; Region: CARDB; pfam07705 760142003698 CARDB; Region: CARDB; pfam07705 760142003699 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 760142003700 putative active site [active] 760142003701 Right handed beta helix region; Region: Beta_helix; pfam13229 760142003702 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 760142003703 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 760142003704 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 760142003705 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 760142003706 Walker A motif; other site 760142003707 ATP binding site [chemical binding]; other site 760142003708 Walker B motif; other site 760142003709 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 760142003710 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 760142003711 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 760142003712 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 760142003713 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 760142003714 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 760142003715 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 760142003716 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 760142003717 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142003718 binding surface 760142003719 TPR motif; other site 760142003720 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 760142003721 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 760142003722 ATP cone domain; Region: ATP-cone; pfam03477 760142003723 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 760142003724 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 760142003725 protein-splicing catalytic site; other site 760142003726 thioester formation/cholesterol transfer; other site 760142003727 Class III ribonucleotide reductase; Region: RNR_III; cd01675 760142003728 active site 760142003729 Zn binding site [ion binding]; other site 760142003730 glycine loop; other site 760142003731 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 760142003732 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142003733 FeS/SAM binding site; other site 760142003734 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 760142003735 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 760142003736 N-terminal plug; other site 760142003737 ligand-binding site [chemical binding]; other site 760142003738 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 760142003739 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 760142003740 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 760142003741 Walker A/P-loop; other site 760142003742 ATP binding site [chemical binding]; other site 760142003743 Q-loop/lid; other site 760142003744 ABC transporter signature motif; other site 760142003745 Walker B; other site 760142003746 D-loop; other site 760142003747 H-loop/switch region; other site 760142003748 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 760142003749 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 760142003750 ABC-ATPase subunit interface; other site 760142003751 dimer interface [polypeptide binding]; other site 760142003752 putative PBP binding regions; other site 760142003753 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 760142003754 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 760142003755 intersubunit interface [polypeptide binding]; other site 760142003756 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142003757 Transposase [DNA replication, recombination, and repair]; Region: COG5421 760142003758 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 760142003759 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142003760 MULE transposase domain; Region: MULE; pfam10551 760142003761 Mechanosensitive ion channel; Region: MS_channel; pfam00924 760142003762 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 760142003763 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 760142003764 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142003765 FeS/SAM binding site; other site 760142003766 TRAM domain; Region: TRAM; cl01282 760142003767 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 760142003768 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 760142003769 G1 box; other site 760142003770 putative GEF interaction site [polypeptide binding]; other site 760142003771 GTP/Mg2+ binding site [chemical binding]; other site 760142003772 Switch I region; other site 760142003773 G2 box; other site 760142003774 G3 box; other site 760142003775 Switch II region; other site 760142003776 G4 box; other site 760142003777 G5 box; other site 760142003778 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 760142003779 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 760142003780 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 760142003781 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 760142003782 FMN binding site [chemical binding]; other site 760142003783 substrate binding site [chemical binding]; other site 760142003784 putative catalytic residue [active] 760142003785 Membrane protein of unknown function; Region: DUF360; pfam04020 760142003786 Lipopolysaccharide-assembly; Region: LptE; pfam04390 760142003787 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 760142003788 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 760142003789 HIGH motif; other site 760142003790 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 760142003791 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 760142003792 active site 760142003793 KMSKS motif; other site 760142003794 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 760142003795 tRNA binding surface [nucleotide binding]; other site 760142003796 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 760142003797 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 760142003798 active site 760142003799 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 760142003800 active site 760142003801 dimer interface [polypeptide binding]; other site 760142003802 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 760142003803 dimer interface [polypeptide binding]; other site 760142003804 active site 760142003805 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 760142003806 dimerization interface [polypeptide binding]; other site 760142003807 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 760142003808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142003809 dimer interface [polypeptide binding]; other site 760142003810 putative CheW interface [polypeptide binding]; other site 760142003811 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 760142003812 intersubunit interface [polypeptide binding]; other site 760142003813 active site 760142003814 zinc binding site [ion binding]; other site 760142003815 Na+ binding site [ion binding]; other site 760142003816 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 760142003817 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142003818 FeS/SAM binding site; other site 760142003819 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 760142003820 Rubrerythrin [Energy production and conversion]; Region: COG1592 760142003821 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 760142003822 binuclear metal center [ion binding]; other site 760142003823 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 760142003824 iron binding site [ion binding]; other site 760142003825 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 760142003826 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142003827 FeS/SAM binding site; other site 760142003828 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 760142003829 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 760142003830 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 760142003831 heterodimer interface [polypeptide binding]; other site 760142003832 active site 760142003833 FMN binding site [chemical binding]; other site 760142003834 homodimer interface [polypeptide binding]; other site 760142003835 substrate binding site [chemical binding]; other site 760142003836 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 760142003837 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 760142003838 FAD binding pocket [chemical binding]; other site 760142003839 FAD binding motif [chemical binding]; other site 760142003840 phosphate binding motif [ion binding]; other site 760142003841 beta-alpha-beta structure motif; other site 760142003842 NAD binding pocket [chemical binding]; other site 760142003843 Iron coordination center [ion binding]; other site 760142003844 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 760142003845 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 760142003846 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 760142003847 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 760142003848 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 760142003849 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 760142003850 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 760142003851 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 760142003852 ATP-grasp domain; Region: ATP-grasp_4; cl17255 760142003853 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 760142003854 IMP binding site; other site 760142003855 dimer interface [polypeptide binding]; other site 760142003856 interdomain contacts; other site 760142003857 partial ornithine binding site; other site 760142003858 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 760142003859 SmpB-tmRNA interface; other site 760142003860 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 760142003861 Secretin and TonB N terminus short domain; Region: STN; pfam07660 760142003862 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 760142003863 Pilus assembly protein, PilO; Region: PilO; cl01234 760142003864 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 760142003865 Competence protein A; Region: Competence_A; pfam11104 760142003866 PemK-like protein; Region: PemK; cl00995 760142003867 threonine dehydratase; Reviewed; Region: PRK09224 760142003868 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 760142003869 tetramer interface [polypeptide binding]; other site 760142003870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142003871 catalytic residue [active] 760142003872 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 760142003873 putative Ile/Val binding site [chemical binding]; other site 760142003874 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 760142003875 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 760142003876 catalytic residues [active] 760142003877 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142003878 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 760142003879 acyl-activating enzyme (AAE) consensus motif; other site 760142003880 AMP binding site [chemical binding]; other site 760142003881 active site 760142003882 CoA binding site [chemical binding]; other site 760142003883 ACT domain-containing protein [General function prediction only]; Region: COG4747 760142003884 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 760142003885 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 760142003886 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 760142003887 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 760142003888 putative ligand binding site [chemical binding]; other site 760142003889 Uncharacterized conserved protein [Function unknown]; Region: COG3334 760142003890 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 760142003891 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 760142003892 Walker A motif/ATP binding site; other site 760142003893 Walker B motif; other site 760142003894 Flagellar assembly protein FliH; Region: FliH; pfam02108 760142003895 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 760142003896 FliG C-terminal domain; Region: FliG_C; pfam01706 760142003897 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 760142003898 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 760142003899 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 760142003900 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 760142003901 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 760142003902 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 760142003903 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 760142003904 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 760142003905 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 760142003906 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 760142003907 GAF domain; Region: GAF; pfam01590 760142003908 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142003909 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142003910 Zn2+ binding site [ion binding]; other site 760142003911 Mg2+ binding site [ion binding]; other site 760142003912 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142003913 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142003914 metal binding site [ion binding]; metal-binding site 760142003915 active site 760142003916 I-site; other site 760142003917 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 760142003918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142003919 dimer interface [polypeptide binding]; other site 760142003920 conserved gate region; other site 760142003921 putative PBP binding loops; other site 760142003922 ABC-ATPase subunit interface; other site 760142003923 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 760142003924 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 760142003925 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142003926 Walker A motif; other site 760142003927 ATP binding site [chemical binding]; other site 760142003928 Walker B motif; other site 760142003929 arginine finger; other site 760142003930 phosphoglycolate phosphatase; Provisional; Region: PRK13222 760142003931 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 760142003932 motif II; other site 760142003933 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 760142003934 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 760142003935 dimer interface [polypeptide binding]; other site 760142003936 active site 760142003937 acyl carrier protein; Provisional; Region: acpP; PRK00982 760142003938 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 760142003939 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 760142003940 NAD(P) binding site [chemical binding]; other site 760142003941 homotetramer interface [polypeptide binding]; other site 760142003942 homodimer interface [polypeptide binding]; other site 760142003943 active site 760142003944 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 760142003945 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 760142003946 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 760142003947 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 760142003948 FMN binding site [chemical binding]; other site 760142003949 substrate binding site [chemical binding]; other site 760142003950 putative catalytic residue [active] 760142003951 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 760142003952 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 760142003953 dimer interface [polypeptide binding]; other site 760142003954 active site 760142003955 CoA binding pocket [chemical binding]; other site 760142003956 putative phosphate acyltransferase; Provisional; Region: PRK05331 760142003957 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 760142003958 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 760142003959 active site 760142003960 multimer interface [polypeptide binding]; other site 760142003961 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 760142003962 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 760142003963 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142003964 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142003965 Zn2+ binding site [ion binding]; other site 760142003966 Mg2+ binding site [ion binding]; other site 760142003967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142003968 metal binding site [ion binding]; metal-binding site 760142003969 active site 760142003970 Domain of unknown function DUF59; Region: DUF59; cl00941 760142003971 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 760142003972 P loop nucleotide binding; other site 760142003973 Ferredoxin [Energy production and conversion]; Region: COG1146 760142003974 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 760142003975 switch II; other site 760142003976 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 760142003977 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 760142003978 P loop nucleotide binding; other site 760142003979 switch II; other site 760142003980 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 760142003981 5'-3' exonuclease; Region: 53EXOc; smart00475 760142003982 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 760142003983 active site 760142003984 metal binding site 1 [ion binding]; metal-binding site 760142003985 putative 5' ssDNA interaction site; other site 760142003986 metal binding site 3; metal-binding site 760142003987 metal binding site 2 [ion binding]; metal-binding site 760142003988 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 760142003989 putative DNA binding site [nucleotide binding]; other site 760142003990 putative metal binding site [ion binding]; other site 760142003991 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 760142003992 DNA polymerase I; Provisional; Region: PRK05755 760142003993 active site 760142003994 substrate binding site [chemical binding]; other site 760142003995 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 760142003996 active site 760142003997 DNA binding site [nucleotide binding] 760142003998 catalytic site [active] 760142003999 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 760142004000 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 760142004001 Ferrochelatase; Region: Ferrochelatase; pfam00762 760142004002 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 760142004003 active site 760142004004 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 760142004005 N-terminal domain interface [polypeptide binding]; other site 760142004006 active site 760142004007 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 760142004008 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 760142004009 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 760142004010 RmuC family; Region: RmuC; pfam02646 760142004011 Uncharacterized conserved protein [Function unknown]; Region: COG0011 760142004012 acetyl-CoA synthetase; Provisional; Region: PRK00174 760142004013 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 760142004014 active site 760142004015 CoA binding site [chemical binding]; other site 760142004016 acyl-activating enzyme (AAE) consensus motif; other site 760142004017 AMP binding site [chemical binding]; other site 760142004018 acetate binding site [chemical binding]; other site 760142004019 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 760142004020 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 760142004021 active site 760142004022 Nitrate and nitrite sensing; Region: NIT; pfam08376 760142004023 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 760142004024 dimerization interface [polypeptide binding]; other site 760142004025 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 760142004026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142004027 dimer interface [polypeptide binding]; other site 760142004028 putative CheW interface [polypeptide binding]; other site 760142004029 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 760142004030 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 760142004031 putative ligand binding site [chemical binding]; other site 760142004032 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 760142004033 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 760142004034 Walker A/P-loop; other site 760142004035 ATP binding site [chemical binding]; other site 760142004036 Q-loop/lid; other site 760142004037 ABC transporter signature motif; other site 760142004038 Walker B; other site 760142004039 D-loop; other site 760142004040 H-loop/switch region; other site 760142004041 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 760142004042 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142004043 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 760142004044 TM-ABC transporter signature motif; other site 760142004045 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142004046 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 760142004047 TM-ABC transporter signature motif; other site 760142004048 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 760142004049 DctM-like transporters; Region: DctM; pfam06808 760142004050 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 760142004051 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 760142004052 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142004053 MULE transposase domain; Region: MULE; pfam10551 760142004054 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 760142004055 RNA/DNA hybrid binding site [nucleotide binding]; other site 760142004056 active site 760142004057 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 760142004058 Putative zinc ribbon domain; Region: DUF164; pfam02591 760142004059 Uncharacterized conserved protein [Function unknown]; Region: COG0327 760142004060 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 760142004061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142004062 transposase/IS protein; Provisional; Region: PRK09183 760142004063 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142004064 Walker A motif; other site 760142004065 ATP binding site [chemical binding]; other site 760142004066 Walker B motif; other site 760142004067 arginine finger; other site 760142004068 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142004069 Transposase [DNA replication, recombination, and repair]; Region: COG5421 760142004070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142004071 Zn2+ binding site [ion binding]; other site 760142004072 Mg2+ binding site [ion binding]; other site 760142004073 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142004074 Winged helix-turn helix; Region: HTH_29; pfam13551 760142004075 Integrase core domain; Region: rve; pfam00665 760142004076 Integrase core domain; Region: rve_3; cl15866 760142004077 proline aminopeptidase P II; Provisional; Region: PRK10879 760142004078 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 760142004079 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 760142004080 active site 760142004081 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 760142004082 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 760142004083 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 760142004084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142004085 dimer interface [polypeptide binding]; other site 760142004086 conserved gate region; other site 760142004087 putative PBP binding loops; other site 760142004088 ABC-ATPase subunit interface; other site 760142004089 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 760142004090 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 760142004091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142004092 dimer interface [polypeptide binding]; other site 760142004093 conserved gate region; other site 760142004094 putative PBP binding loops; other site 760142004095 ABC-ATPase subunit interface; other site 760142004096 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 760142004097 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 760142004098 Walker A/P-loop; other site 760142004099 ATP binding site [chemical binding]; other site 760142004100 Q-loop/lid; other site 760142004101 ABC transporter signature motif; other site 760142004102 Walker B; other site 760142004103 D-loop; other site 760142004104 H-loop/switch region; other site 760142004105 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 760142004106 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 760142004107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 760142004108 Walker A/P-loop; other site 760142004109 ATP binding site [chemical binding]; other site 760142004110 Q-loop/lid; other site 760142004111 ABC transporter signature motif; other site 760142004112 Walker B; other site 760142004113 D-loop; other site 760142004114 H-loop/switch region; other site 760142004115 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 760142004116 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 760142004117 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142004118 Winged helix-turn helix; Region: HTH_29; pfam13551 760142004119 Integrase core domain; Region: rve; pfam00665 760142004120 Integrase core domain; Region: rve_3; cl15866 760142004121 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 760142004122 oligomerisation interface [polypeptide binding]; other site 760142004123 mobile loop; other site 760142004124 roof hairpin; other site 760142004125 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 760142004126 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 760142004127 ring oligomerisation interface [polypeptide binding]; other site 760142004128 ATP/Mg binding site [chemical binding]; other site 760142004129 stacking interactions; other site 760142004130 hinge regions; other site 760142004131 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 760142004132 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 760142004133 oxidoreductase; Provisional; Region: PRK10015 760142004134 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 760142004135 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 760142004136 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 760142004137 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 760142004138 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 760142004139 Ligand binding site [chemical binding]; other site 760142004140 Electron transfer flavoprotein domain; Region: ETF; pfam01012 760142004141 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 760142004142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 760142004143 dimer interface [polypeptide binding]; other site 760142004144 putative CheW interface [polypeptide binding]; other site 760142004145 ATP cone domain; Region: ATP-cone; pfam03477 760142004146 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 760142004147 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 760142004148 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 760142004149 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 760142004150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142004151 Zn2+ binding site [ion binding]; other site 760142004152 Mg2+ binding site [ion binding]; other site 760142004153 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 760142004154 GTP-binding protein Der; Reviewed; Region: PRK00093 760142004155 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 760142004156 G1 box; other site 760142004157 GTP/Mg2+ binding site [chemical binding]; other site 760142004158 Switch I region; other site 760142004159 G2 box; other site 760142004160 Switch II region; other site 760142004161 G3 box; other site 760142004162 G4 box; other site 760142004163 G5 box; other site 760142004164 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 760142004165 G1 box; other site 760142004166 GTP/Mg2+ binding site [chemical binding]; other site 760142004167 Switch I region; other site 760142004168 G2 box; other site 760142004169 G3 box; other site 760142004170 Switch II region; other site 760142004171 G4 box; other site 760142004172 G5 box; other site 760142004173 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 760142004174 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 760142004175 minor groove reading motif; other site 760142004176 helix-hairpin-helix signature motif; other site 760142004177 substrate binding pocket [chemical binding]; other site 760142004178 active site 760142004179 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 760142004180 Flagellin N-methylase; Region: FliB; pfam03692 760142004181 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 760142004182 Protein of unknown function (DUF721); Region: DUF721; pfam05258 760142004183 Outer membrane lipoprotein; Region: YfiO; pfam13525 760142004184 Tetratricopeptide repeat; Region: TPR_6; pfam13174 760142004185 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 760142004186 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 760142004187 putative dimer interface [polypeptide binding]; other site 760142004188 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 760142004189 Found in ATP-dependent protease La (LON); Region: LON; smart00464 760142004190 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142004191 Walker A motif; other site 760142004192 ATP binding site [chemical binding]; other site 760142004193 Walker B motif; other site 760142004194 arginine finger; other site 760142004195 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 760142004196 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 760142004197 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 760142004198 FtsX-like permease family; Region: FtsX; pfam02687 760142004199 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 760142004200 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 760142004201 Walker A/P-loop; other site 760142004202 ATP binding site [chemical binding]; other site 760142004203 Q-loop/lid; other site 760142004204 ABC transporter signature motif; other site 760142004205 Walker B; other site 760142004206 D-loop; other site 760142004207 H-loop/switch region; other site 760142004208 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 760142004209 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 760142004210 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 760142004211 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 760142004212 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 760142004213 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 760142004214 Surface antigen; Region: Bac_surface_Ag; pfam01103 760142004215 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 760142004216 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 760142004217 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 760142004218 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 760142004219 trimer interface [polypeptide binding]; other site 760142004220 active site 760142004221 UDP-GlcNAc binding site [chemical binding]; other site 760142004222 lipid binding site [chemical binding]; lipid-binding site 760142004223 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 760142004224 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 760142004225 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 760142004226 active site 760142004227 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 760142004228 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 760142004229 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 760142004230 putative acyl-acceptor binding pocket; other site 760142004231 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 760142004232 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 760142004233 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 760142004234 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 760142004235 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 760142004236 Walker A/P-loop; other site 760142004237 ATP binding site [chemical binding]; other site 760142004238 Q-loop/lid; other site 760142004239 ABC transporter signature motif; other site 760142004240 Walker B; other site 760142004241 D-loop; other site 760142004242 H-loop/switch region; other site 760142004243 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 760142004244 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 760142004245 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 760142004246 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 760142004247 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 760142004248 ATP binding site [chemical binding]; other site 760142004249 putative Mg++ binding site [ion binding]; other site 760142004250 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 760142004251 nucleotide binding region [chemical binding]; other site 760142004252 ATP-binding site [chemical binding]; other site 760142004253 TRCF domain; Region: TRCF; pfam03461 760142004254 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 760142004255 rare lipoprotein A; Region: rlpA; TIGR00413 760142004256 Sporulation related domain; Region: SPOR; pfam05036 760142004257 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 760142004258 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 760142004259 putative acyl-acceptor binding pocket; other site 760142004260 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142004261 PAS domain; Region: PAS_9; pfam13426 760142004262 putative active site [active] 760142004263 heme pocket [chemical binding]; other site 760142004264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 760142004265 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 760142004266 dimer interface [polypeptide binding]; other site 760142004267 phosphorylation site [posttranslational modification] 760142004268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142004269 ATP binding site [chemical binding]; other site 760142004270 Mg2+ binding site [ion binding]; other site 760142004271 G-X-G motif; other site 760142004272 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004273 binding surface 760142004274 TPR motif; other site 760142004275 Tetratricopeptide repeat; Region: TPR_16; pfam13432 760142004276 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 760142004277 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004278 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 760142004279 TPR motif; other site 760142004280 binding surface 760142004281 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 760142004282 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 760142004283 dimer interface [polypeptide binding]; other site 760142004284 active site 760142004285 glycine-pyridoxal phosphate binding site [chemical binding]; other site 760142004286 folate binding site [chemical binding]; other site 760142004287 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 760142004288 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142004289 putative active site [active] 760142004290 heme pocket [chemical binding]; other site 760142004291 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 760142004292 GAF domain; Region: GAF; pfam01590 760142004293 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 760142004294 putative active site [active] 760142004295 heme pocket [chemical binding]; other site 760142004296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142004297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142004298 metal binding site [ion binding]; metal-binding site 760142004299 active site 760142004300 I-site; other site 760142004301 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 760142004302 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 760142004303 NADH dehydrogenase; Region: NADHdh; cl00469 760142004304 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 760142004305 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 760142004306 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 760142004307 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 760142004308 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 760142004309 hydrogenase 4 subunit B; Validated; Region: PRK06459 760142004310 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 760142004311 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 760142004312 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 760142004313 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 760142004314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 760142004315 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 760142004316 homotrimer interface [polypeptide binding]; other site 760142004317 Walker A motif; other site 760142004318 GTP binding site [chemical binding]; other site 760142004319 Walker B motif; other site 760142004320 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 760142004321 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 760142004322 putative RNA binding site [nucleotide binding]; other site 760142004323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142004324 S-adenosylmethionine binding site [chemical binding]; other site 760142004325 Acylphosphatase; Region: Acylphosphatase; pfam00708 760142004326 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 760142004327 HypF finger; Region: zf-HYPF; pfam07503 760142004328 HypF finger; Region: zf-HYPF; pfam07503 760142004329 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 760142004330 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 760142004331 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 760142004332 NAD(P) binding site [chemical binding]; other site 760142004333 HupF/HypC family; Region: HupF_HypC; pfam01455 760142004334 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 760142004335 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 760142004336 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 760142004337 dimerization interface [polypeptide binding]; other site 760142004338 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 760142004339 ATP binding site [chemical binding]; other site 760142004340 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 760142004341 transmembrane helices; other site 760142004342 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 760142004343 TPR repeat; Region: TPR_11; pfam13414 760142004344 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004345 binding surface 760142004346 TPR motif; other site 760142004347 TPR repeat; Region: TPR_11; pfam13414 760142004348 TPR repeat; Region: TPR_11; pfam13414 760142004349 Tetratricopeptide repeat; Region: TPR_1; pfam00515 760142004350 TPR repeat; Region: TPR_11; pfam13414 760142004351 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004352 binding surface 760142004353 TPR motif; other site 760142004354 Tetratricopeptide repeat; Region: TPR_16; pfam13432 760142004355 HDOD domain; Region: HDOD; pfam08668 760142004356 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 760142004357 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 760142004358 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 760142004359 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 760142004360 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 760142004361 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 760142004362 Ligand Binding Site [chemical binding]; other site 760142004363 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 760142004364 Ligand Binding Site [chemical binding]; other site 760142004365 FtsH Extracellular; Region: FtsH_ext; pfam06480 760142004366 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 760142004367 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142004368 Walker B motif; other site 760142004369 arginine finger; other site 760142004370 Peptidase family M41; Region: Peptidase_M41; pfam01434 760142004371 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 760142004372 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 760142004373 Trp docking motif [polypeptide binding]; other site 760142004374 active site 760142004375 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 760142004376 active site 760142004377 hypothetical protein; Provisional; Region: PRK06361 760142004378 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 760142004379 RNA binding site [nucleotide binding]; other site 760142004380 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 760142004381 RNA binding site [nucleotide binding]; other site 760142004382 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 760142004383 RNA binding site [nucleotide binding]; other site 760142004384 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 760142004385 RNA binding site [nucleotide binding]; other site 760142004386 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 760142004387 RNA binding site [nucleotide binding]; other site 760142004388 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 760142004389 RNA binding site [nucleotide binding]; other site 760142004390 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 760142004391 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 760142004392 tandem repeat interface [polypeptide binding]; other site 760142004393 oligomer interface [polypeptide binding]; other site 760142004394 active site residues [active] 760142004395 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 760142004396 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 760142004397 P loop; other site 760142004398 Nucleotide binding site [chemical binding]; other site 760142004399 DTAP/Switch II; other site 760142004400 Switch I; other site 760142004401 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 760142004402 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 760142004403 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 760142004404 lipoprotein signal peptidase; Provisional; Region: PRK14787 760142004405 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 760142004406 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 760142004407 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 760142004408 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 760142004409 alphaNTD homodimer interface [polypeptide binding]; other site 760142004410 alphaNTD - beta interaction site [polypeptide binding]; other site 760142004411 alphaNTD - beta' interaction site [polypeptide binding]; other site 760142004412 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 760142004413 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 760142004414 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 760142004415 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 760142004416 RNA binding surface [nucleotide binding]; other site 760142004417 30S ribosomal protein S11; Validated; Region: PRK05309 760142004418 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 760142004419 30S ribosomal protein S13; Region: bact_S13; TIGR03631 760142004420 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 760142004421 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 760142004422 rRNA binding site [nucleotide binding]; other site 760142004423 predicted 30S ribosome binding site; other site 760142004424 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 760142004425 active site 760142004426 adenylate kinase; Reviewed; Region: adk; PRK00279 760142004427 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 760142004428 AMP-binding site [chemical binding]; other site 760142004429 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 760142004430 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 760142004431 SecY translocase; Region: SecY; pfam00344 760142004432 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 760142004433 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 760142004434 23S rRNA binding site [nucleotide binding]; other site 760142004435 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 760142004436 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 760142004437 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 760142004438 23S rRNA interface [nucleotide binding]; other site 760142004439 5S rRNA interface [nucleotide binding]; other site 760142004440 L27 interface [polypeptide binding]; other site 760142004441 L5 interface [polypeptide binding]; other site 760142004442 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 760142004443 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 760142004444 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 760142004445 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 760142004446 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 760142004447 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 760142004448 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 760142004449 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 760142004450 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 760142004451 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 760142004452 RNA binding site [nucleotide binding]; other site 760142004453 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 760142004454 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 760142004455 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 760142004456 23S rRNA interface [nucleotide binding]; other site 760142004457 putative translocon interaction site; other site 760142004458 signal recognition particle (SRP54) interaction site; other site 760142004459 L23 interface [polypeptide binding]; other site 760142004460 trigger factor interaction site; other site 760142004461 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 760142004462 23S rRNA interface [nucleotide binding]; other site 760142004463 5S rRNA interface [nucleotide binding]; other site 760142004464 putative antibiotic binding site [chemical binding]; other site 760142004465 L25 interface [polypeptide binding]; other site 760142004466 L27 interface [polypeptide binding]; other site 760142004467 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 760142004468 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 760142004469 G-X-X-G motif; other site 760142004470 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 760142004471 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 760142004472 putative translocon binding site; other site 760142004473 protein-rRNA interface [nucleotide binding]; other site 760142004474 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 760142004475 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 760142004476 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 760142004477 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 760142004478 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 760142004479 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 760142004480 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 760142004481 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 760142004482 elongation factor Tu; Reviewed; Region: PRK00049 760142004483 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 760142004484 G1 box; other site 760142004485 GEF interaction site [polypeptide binding]; other site 760142004486 GTP/Mg2+ binding site [chemical binding]; other site 760142004487 Switch I region; other site 760142004488 G2 box; other site 760142004489 G3 box; other site 760142004490 Switch II region; other site 760142004491 G4 box; other site 760142004492 G5 box; other site 760142004493 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 760142004494 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 760142004495 Antibiotic Binding Site [chemical binding]; other site 760142004496 elongation factor G; Reviewed; Region: PRK00007 760142004497 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 760142004498 G1 box; other site 760142004499 putative GEF interaction site [polypeptide binding]; other site 760142004500 GTP/Mg2+ binding site [chemical binding]; other site 760142004501 Switch I region; other site 760142004502 G2 box; other site 760142004503 G3 box; other site 760142004504 Switch II region; other site 760142004505 G4 box; other site 760142004506 G5 box; other site 760142004507 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 760142004508 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 760142004509 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 760142004510 30S ribosomal protein S7; Validated; Region: PRK05302 760142004511 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 760142004512 S17 interaction site [polypeptide binding]; other site 760142004513 S8 interaction site; other site 760142004514 16S rRNA interaction site [nucleotide binding]; other site 760142004515 streptomycin interaction site [chemical binding]; other site 760142004516 23S rRNA interaction site [nucleotide binding]; other site 760142004517 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 760142004518 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 760142004519 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 760142004520 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 760142004521 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 760142004522 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 760142004523 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 760142004524 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 760142004525 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 760142004526 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 760142004527 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 760142004528 DNA binding site [nucleotide binding] 760142004529 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 760142004530 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 760142004531 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 760142004532 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 760142004533 RPB11 interaction site [polypeptide binding]; other site 760142004534 RPB12 interaction site [polypeptide binding]; other site 760142004535 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 760142004536 RPB3 interaction site [polypeptide binding]; other site 760142004537 RPB1 interaction site [polypeptide binding]; other site 760142004538 RPB11 interaction site [polypeptide binding]; other site 760142004539 RPB10 interaction site [polypeptide binding]; other site 760142004540 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 760142004541 core dimer interface [polypeptide binding]; other site 760142004542 peripheral dimer interface [polypeptide binding]; other site 760142004543 L10 interface [polypeptide binding]; other site 760142004544 L11 interface [polypeptide binding]; other site 760142004545 putative EF-Tu interaction site [polypeptide binding]; other site 760142004546 putative EF-G interaction site [polypeptide binding]; other site 760142004547 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 760142004548 23S rRNA interface [nucleotide binding]; other site 760142004549 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 760142004550 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 760142004551 mRNA/rRNA interface [nucleotide binding]; other site 760142004552 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 760142004553 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 760142004554 23S rRNA interface [nucleotide binding]; other site 760142004555 L7/L12 interface [polypeptide binding]; other site 760142004556 putative thiostrepton binding site; other site 760142004557 L25 interface [polypeptide binding]; other site 760142004558 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 760142004559 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 760142004560 putative homodimer interface [polypeptide binding]; other site 760142004561 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 760142004562 heterodimer interface [polypeptide binding]; other site 760142004563 homodimer interface [polypeptide binding]; other site 760142004564 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 760142004565 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 760142004566 elongation factor Tu; Reviewed; Region: PRK00049 760142004567 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 760142004568 G1 box; other site 760142004569 GEF interaction site [polypeptide binding]; other site 760142004570 GTP/Mg2+ binding site [chemical binding]; other site 760142004571 Switch I region; other site 760142004572 G2 box; other site 760142004573 G3 box; other site 760142004574 Switch II region; other site 760142004575 G4 box; other site 760142004576 G5 box; other site 760142004577 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 760142004578 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 760142004579 Antibiotic Binding Site [chemical binding]; other site 760142004580 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142004581 Winged helix-turn helix; Region: HTH_29; pfam13551 760142004582 Integrase core domain; Region: rve; pfam00665 760142004583 Integrase core domain; Region: rve_3; cl15866 760142004584 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 760142004585 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 760142004586 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 760142004587 aspartate aminotransferase; Provisional; Region: PRK05764 760142004588 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142004589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142004590 homodimer interface [polypeptide binding]; other site 760142004591 catalytic residue [active] 760142004592 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 760142004593 DctM-like transporters; Region: DctM; pfam06808 760142004594 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 760142004595 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 760142004596 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 760142004597 putative deacylase active site [active] 760142004598 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 760142004599 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 760142004600 putative NAD(P) binding site [chemical binding]; other site 760142004601 active site 760142004602 putative substrate binding site [chemical binding]; other site 760142004603 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 760142004604 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 760142004605 active site 760142004606 PHP Thumb interface [polypeptide binding]; other site 760142004607 metal binding site [ion binding]; metal-binding site 760142004608 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 760142004609 generic binding surface II; other site 760142004610 generic binding surface I; other site 760142004611 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 760142004612 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 760142004613 Methyltransferase domain; Region: Methyltransf_31; pfam13847 760142004614 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142004615 S-adenosylmethionine binding site [chemical binding]; other site 760142004616 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 760142004617 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 760142004618 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 760142004619 G1 box; other site 760142004620 GTP/Mg2+ binding site [chemical binding]; other site 760142004621 Switch I region; other site 760142004622 G2 box; other site 760142004623 G3 box; other site 760142004624 Switch II region; other site 760142004625 G4 box; other site 760142004626 G5 box; other site 760142004627 Nucleoside recognition; Region: Gate; pfam07670 760142004628 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 760142004629 Nucleoside recognition; Region: Gate; pfam07670 760142004630 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 760142004631 RNA/DNA hybrid binding site [nucleotide binding]; other site 760142004632 active site 760142004633 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 760142004634 CoA binding domain; Region: CoA_binding; smart00881 760142004635 CoA-ligase; Region: Ligase_CoA; pfam00549 760142004636 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 760142004637 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 760142004638 CoA-ligase; Region: Ligase_CoA; pfam00549 760142004639 putative acyltransferase; Provisional; Region: PRK05790 760142004640 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 760142004641 dimer interface [polypeptide binding]; other site 760142004642 active site 760142004643 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 760142004644 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 760142004645 substrate binding site [chemical binding]; other site 760142004646 oxyanion hole (OAH) forming residues; other site 760142004647 trimer interface [polypeptide binding]; other site 760142004648 putative GTP cyclohydrolase; Provisional; Region: PRK13674 760142004649 Peptidase family M48; Region: Peptidase_M48; cl12018 760142004650 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 760142004651 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 760142004652 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 760142004653 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 760142004654 hexamer interface [polypeptide binding]; other site 760142004655 ligand binding site [chemical binding]; other site 760142004656 putative active site [active] 760142004657 NAD(P) binding site [chemical binding]; other site 760142004658 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 760142004659 Predicted membrane protein [Function unknown]; Region: COG3174 760142004660 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 760142004661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 760142004662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 760142004663 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 760142004664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 760142004665 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 760142004666 HlyD family secretion protein; Region: HlyD_3; pfam13437 760142004667 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 760142004668 Protein export membrane protein; Region: SecD_SecF; cl14618 760142004669 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 760142004670 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 760142004671 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 760142004672 E3 interaction surface; other site 760142004673 lipoyl attachment site [posttranslational modification]; other site 760142004674 HlyD family secretion protein; Region: HlyD_3; pfam13437 760142004675 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 760142004676 Protein export membrane protein; Region: SecD_SecF; cl14618 760142004677 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 760142004678 DEAD-like helicases superfamily; Region: DEXDc; smart00487 760142004679 ATP binding site [chemical binding]; other site 760142004680 Mg++ binding site [ion binding]; other site 760142004681 motif III; other site 760142004682 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 760142004683 nucleotide binding region [chemical binding]; other site 760142004684 ATP-binding site [chemical binding]; other site 760142004685 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 760142004686 RNA binding site [nucleotide binding]; other site 760142004687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142004688 Major Facilitator Superfamily; Region: MFS_1; pfam07690 760142004689 putative substrate translocation pore; other site 760142004690 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 760142004691 FAD binding site [chemical binding]; other site 760142004692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 760142004693 HAMP domain; Region: HAMP; pfam00672 760142004694 dimerization interface [polypeptide binding]; other site 760142004695 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 760142004696 dimer interface [polypeptide binding]; other site 760142004697 phosphorylation site [posttranslational modification] 760142004698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142004699 ATP binding site [chemical binding]; other site 760142004700 Mg2+ binding site [ion binding]; other site 760142004701 G-X-G motif; other site 760142004702 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 760142004703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142004704 active site 760142004705 phosphorylation site [posttranslational modification] 760142004706 intermolecular recognition site; other site 760142004707 dimerization interface [polypeptide binding]; other site 760142004708 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 760142004709 DNA binding site [nucleotide binding] 760142004710 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 760142004711 dimer interface [polypeptide binding]; other site 760142004712 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 760142004713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142004714 putative substrate translocation pore; other site 760142004715 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142004716 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 760142004717 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 760142004718 HlyD family secretion protein; Region: HlyD_3; pfam13437 760142004719 MarR family; Region: MarR_2; pfam12802 760142004720 Uncharacterized conserved protein [Function unknown]; Region: COG0432 760142004721 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 760142004722 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 760142004723 catalytic motif [active] 760142004724 Zn binding site [ion binding]; other site 760142004725 RibD C-terminal domain; Region: RibD_C; cl17279 760142004726 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 760142004727 Lumazine binding domain; Region: Lum_binding; pfam00677 760142004728 Lumazine binding domain; Region: Lum_binding; pfam00677 760142004729 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 760142004730 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 760142004731 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 760142004732 dimerization interface [polypeptide binding]; other site 760142004733 active site 760142004734 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 760142004735 homopentamer interface [polypeptide binding]; other site 760142004736 active site 760142004737 transcription antitermination factor NusB; Region: nusB; TIGR01951 760142004738 putative RNA binding site [nucleotide binding]; other site 760142004739 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 760142004740 active site 760142004741 dimer interface [polypeptide binding]; other site 760142004742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 760142004743 active site 760142004744 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 760142004745 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 760142004746 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 760142004747 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 760142004748 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 760142004749 RNA binding surface [nucleotide binding]; other site 760142004750 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142004751 S-adenosylmethionine binding site [chemical binding]; other site 760142004752 GAF domain; Region: GAF_2; pfam13185 760142004753 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 760142004754 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142004755 Zn2+ binding site [ion binding]; other site 760142004756 Mg2+ binding site [ion binding]; other site 760142004757 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142004758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142004759 metal binding site [ion binding]; metal-binding site 760142004760 active site 760142004761 I-site; other site 760142004762 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142004763 Winged helix-turn helix; Region: HTH_29; pfam13551 760142004764 Integrase core domain; Region: rve; pfam00665 760142004765 Integrase core domain; Region: rve_3; cl15866 760142004766 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 760142004767 Ferritin-like domain; Region: Ferritin; pfam00210 760142004768 diiron binding motif [ion binding]; other site 760142004769 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 760142004770 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 760142004771 CoenzymeA binding site [chemical binding]; other site 760142004772 subunit interaction site [polypeptide binding]; other site 760142004773 PHB binding site; other site 760142004774 signal recognition particle protein; Provisional; Region: PRK10867 760142004775 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 760142004776 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 760142004777 P loop; other site 760142004778 GTP binding site [chemical binding]; other site 760142004779 Signal peptide binding domain; Region: SRP_SPB; pfam02978 760142004780 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 760142004781 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 760142004782 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 760142004783 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 760142004784 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 760142004785 hypothetical protein; Reviewed; Region: PRK12497 760142004786 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 760142004787 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 760142004788 dimer interface [polypeptide binding]; other site 760142004789 putative functional site; other site 760142004790 putative MPT binding site; other site 760142004791 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 760142004792 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 760142004793 putative MPT binding site; other site 760142004794 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 760142004795 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 760142004796 Walker A/P-loop; other site 760142004797 ATP binding site [chemical binding]; other site 760142004798 Q-loop/lid; other site 760142004799 ABC transporter signature motif; other site 760142004800 Walker B; other site 760142004801 D-loop; other site 760142004802 H-loop/switch region; other site 760142004803 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 760142004804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 760142004805 dimer interface [polypeptide binding]; other site 760142004806 conserved gate region; other site 760142004807 putative PBP binding loops; other site 760142004808 ABC-ATPase subunit interface; other site 760142004809 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 760142004810 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 760142004811 substrate binding pocket [chemical binding]; other site 760142004812 membrane-bound complex binding site; other site 760142004813 hinge residues; other site 760142004814 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 760142004815 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 760142004816 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 760142004817 Response regulator receiver domain; Region: Response_reg; pfam00072 760142004818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 760142004819 active site 760142004820 phosphorylation site [posttranslational modification] 760142004821 intermolecular recognition site; other site 760142004822 dimerization interface [polypeptide binding]; other site 760142004823 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 760142004824 dimer interface [polypeptide binding]; other site 760142004825 phosphorylation site [posttranslational modification] 760142004826 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 760142004827 ATP binding site [chemical binding]; other site 760142004828 Mg2+ binding site [ion binding]; other site 760142004829 G-X-G motif; other site 760142004830 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 760142004831 homohexameric interface [polypeptide binding]; other site 760142004832 feedback inhibition sensing region; other site 760142004833 nucleotide binding site [chemical binding]; other site 760142004834 N-acetyl-L-glutamate binding site [chemical binding]; other site 760142004835 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 760142004836 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 760142004837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 760142004838 metal binding site [ion binding]; metal-binding site 760142004839 active site 760142004840 I-site; other site 760142004841 Predicted permease [General function prediction only]; Region: COG2985 760142004842 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 760142004843 TrkA-C domain; Region: TrkA_C; pfam02080 760142004844 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 760142004845 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 760142004846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 760142004847 putative substrate translocation pore; other site 760142004848 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 760142004849 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 760142004850 active site 760142004851 DNA binding site [nucleotide binding] 760142004852 Int/Topo IB signature motif; other site 760142004853 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 760142004854 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 760142004855 active site 760142004856 nucleotide binding site [chemical binding]; other site 760142004857 HIGH motif; other site 760142004858 KMSKS motif; other site 760142004859 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 760142004860 dimer interface [polypeptide binding]; other site 760142004861 active site 760142004862 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 760142004863 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 760142004864 motif 1; other site 760142004865 dimer interface [polypeptide binding]; other site 760142004866 active site 760142004867 motif 2; other site 760142004868 motif 3; other site 760142004869 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 760142004870 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 760142004871 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 760142004872 Ligand Binding Site [chemical binding]; other site 760142004873 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 760142004874 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142004875 S-adenosylmethionine binding site [chemical binding]; other site 760142004876 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 760142004877 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 760142004878 putative active site [active] 760142004879 metal binding site [ion binding]; metal-binding site 760142004880 homodimer binding site [polypeptide binding]; other site 760142004881 ribonuclease Y; Region: RNase_Y; TIGR03319 760142004882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 760142004883 Zn2+ binding site [ion binding]; other site 760142004884 Mg2+ binding site [ion binding]; other site 760142004885 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 760142004886 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 760142004887 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 760142004888 putative subunit interface; other site 760142004889 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 760142004890 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 760142004891 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 760142004892 putative active site [active] 760142004893 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 760142004894 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 760142004895 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 760142004896 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 760142004897 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 760142004898 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 760142004899 4Fe-4S binding domain; Region: Fer4; pfam00037 760142004900 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 760142004901 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 760142004902 active site 760142004903 FMN binding site [chemical binding]; other site 760142004904 substrate binding site [chemical binding]; other site 760142004905 3Fe-4S cluster binding site [ion binding]; other site 760142004906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 760142004907 Coenzyme A binding pocket [chemical binding]; other site 760142004908 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 760142004909 histidinol dehydrogenase; Region: hisD; TIGR00069 760142004910 NAD binding site [chemical binding]; other site 760142004911 dimerization interface [polypeptide binding]; other site 760142004912 product binding site; other site 760142004913 substrate binding site [chemical binding]; other site 760142004914 zinc binding site [ion binding]; other site 760142004915 catalytic residues [active] 760142004916 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 760142004917 Flavoprotein; Region: Flavoprotein; pfam02441 760142004918 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 760142004919 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 760142004920 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 760142004921 Ligand binding site; other site 760142004922 oligomer interface; other site 760142004923 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 760142004924 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 760142004925 putative ribose interaction site [chemical binding]; other site 760142004926 putative ADP binding site [chemical binding]; other site 760142004927 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 760142004928 Flagellar protein YcgR; Region: YcgR_2; pfam12945 760142004929 PilZ domain; Region: PilZ; pfam07238 760142004930 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 760142004931 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 760142004932 metal binding triad; other site 760142004933 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 760142004934 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 760142004935 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 760142004936 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 760142004937 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 760142004938 Nitrogen regulatory protein P-II; Region: P-II; smart00938 760142004939 Homeodomain-like domain; Region: HTH_23; cl17451 760142004940 PilZ domain; Region: PilZ; pfam07238 760142004941 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 760142004942 UbiA prenyltransferase family; Region: UbiA; pfam01040 760142004943 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 760142004944 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 760142004945 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 760142004946 N-acetyl-D-glucosamine binding site [chemical binding]; other site 760142004947 catalytic residue [active] 760142004948 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 760142004949 binding surface 760142004950 TPR motif; other site 760142004951 TPR repeat; Region: TPR_11; pfam13414 760142004952 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004953 binding surface 760142004954 TPR motif; other site 760142004955 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142004956 binding surface 760142004957 TPR motif; other site 760142004958 TPR repeat; Region: TPR_11; pfam13414 760142004959 Tetratricopeptide repeat; Region: TPR_12; pfam13424 760142004960 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 760142004961 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 760142004962 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 760142004963 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 760142004964 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 760142004965 active site 760142004966 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 760142004967 protein binding site [polypeptide binding]; other site 760142004968 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 760142004969 putative substrate binding region [chemical binding]; other site 760142004970 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 760142004971 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 760142004972 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 760142004973 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 760142004974 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 760142004975 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 760142004976 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 760142004977 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 760142004978 catalytic residue [active] 760142004979 putative FPP diphosphate binding site; other site 760142004980 putative FPP binding hydrophobic cleft; other site 760142004981 dimer interface [polypeptide binding]; other site 760142004982 putative IPP diphosphate binding site; other site 760142004983 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cl00240 760142004984 ribosome recycling factor; Reviewed; Region: frr; PRK00083 760142004985 hinge region; other site 760142004986 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 760142004987 putative nucleotide binding site [chemical binding]; other site 760142004988 uridine monophosphate binding site [chemical binding]; other site 760142004989 homohexameric interface [polypeptide binding]; other site 760142004990 elongation factor Ts; Reviewed; Region: tsf; PRK12332 760142004991 UBA/TS-N domain; Region: UBA; pfam00627 760142004992 Elongation factor TS; Region: EF_TS; pfam00889 760142004993 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 760142004994 rRNA interaction site [nucleotide binding]; other site 760142004995 S8 interaction site; other site 760142004996 putative laminin-1 binding site; other site 760142004997 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 760142004998 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 760142004999 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 760142005000 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 760142005001 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 760142005002 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 760142005003 catalytic residues [active] 760142005004 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 760142005005 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 760142005006 putative active site [active] 760142005007 oxyanion strand; other site 760142005008 catalytic triad [active] 760142005009 glutamate racemase; Provisional; Region: PRK00865 760142005010 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 760142005011 catalytic core [active] 760142005012 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 760142005013 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 760142005014 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 760142005015 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 760142005016 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 760142005017 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 760142005018 Mg++ binding site [ion binding]; other site 760142005019 putative catalytic motif [active] 760142005020 putative substrate binding site [chemical binding]; other site 760142005021 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 760142005022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 760142005023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 760142005024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 760142005025 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 760142005026 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 760142005027 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 760142005028 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 760142005029 AMP-binding domain protein; Validated; Region: PRK08315 760142005030 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142005031 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 760142005032 acyl-activating enzyme (AAE) consensus motif; other site 760142005033 putative AMP binding site [chemical binding]; other site 760142005034 putative active site [active] 760142005035 putative CoA binding site [chemical binding]; other site 760142005036 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142005037 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 760142005038 acyl-activating enzyme (AAE) consensus motif; other site 760142005039 AMP binding site [chemical binding]; other site 760142005040 active site 760142005041 CoA binding site [chemical binding]; other site 760142005042 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 760142005043 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 760142005044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142005045 homodimer interface [polypeptide binding]; other site 760142005046 catalytic residue [active] 760142005047 spermidine synthase; Provisional; Region: PRK00811 760142005048 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 760142005049 S-adenosylmethionine binding site [chemical binding]; other site 760142005050 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 760142005051 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 760142005052 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 760142005053 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 760142005054 TPP-binding site [chemical binding]; other site 760142005055 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 760142005056 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 760142005057 dimer interface [polypeptide binding]; other site 760142005058 PYR/PP interface [polypeptide binding]; other site 760142005059 TPP binding site [chemical binding]; other site 760142005060 substrate binding site [chemical binding]; other site 760142005061 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 760142005062 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 760142005063 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 760142005064 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 760142005065 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 760142005066 Peptidase family M50; Region: Peptidase_M50; pfam02163 760142005067 active site 760142005068 putative substrate binding region [chemical binding]; other site 760142005069 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 760142005070 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 760142005071 FeS/SAM binding site; other site 760142005072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 760142005073 active site 760142005074 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 760142005075 Ligand Binding Site [chemical binding]; other site 760142005076 peptide chain release factor 1; Validated; Region: prfA; PRK00591 760142005077 This domain is found in peptide chain release factors; Region: PCRF; smart00937 760142005078 RF-1 domain; Region: RF-1; pfam00472 760142005079 GTP-binding protein YchF; Reviewed; Region: PRK09601 760142005080 YchF GTPase; Region: YchF; cd01900 760142005081 G1 box; other site 760142005082 GTP/Mg2+ binding site [chemical binding]; other site 760142005083 Switch I region; other site 760142005084 G2 box; other site 760142005085 Switch II region; other site 760142005086 G3 box; other site 760142005087 G4 box; other site 760142005088 G5 box; other site 760142005089 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 760142005090 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 760142005091 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 760142005092 active site 760142005093 Riboflavin kinase; Region: Flavokinase; pfam01687 760142005094 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 760142005095 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 760142005096 putative FMN binding site [chemical binding]; other site 760142005097 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 760142005098 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 760142005099 ssDNA binding site; other site 760142005100 generic binding surface II; other site 760142005101 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 760142005102 ATP binding site [chemical binding]; other site 760142005103 putative Mg++ binding site [ion binding]; other site 760142005104 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 760142005105 nucleotide binding region [chemical binding]; other site 760142005106 ATP-binding site [chemical binding]; other site 760142005107 Predicted amidohydrolase [General function prediction only]; Region: COG0388 760142005108 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 760142005109 active site 760142005110 catalytic triad [active] 760142005111 dimer interface [polypeptide binding]; other site 760142005112 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 760142005113 Coenzyme A transferase; Region: CoA_trans; cl17247 760142005114 Coenzyme A transferase; Region: CoA_trans; cl17247 760142005115 Coenzyme A transferase; Region: CoA_trans; cl17247 760142005116 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 760142005117 Coenzyme A transferase; Region: CoA_trans; smart00882 760142005118 Coenzyme A transferase; Region: CoA_trans; cl17247 760142005119 Quinolinate synthetase A protein; Region: NadA; pfam02445 760142005120 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 760142005121 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 760142005122 dimerization interface [polypeptide binding]; other site 760142005123 active site 760142005124 Predicted amidohydrolase [General function prediction only]; Region: COG0388 760142005125 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 760142005126 putative active site [active] 760142005127 catalytic triad [active] 760142005128 putative dimer interface [polypeptide binding]; other site 760142005129 NAD synthetase; Provisional; Region: PRK13980 760142005130 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 760142005131 homodimer interface [polypeptide binding]; other site 760142005132 NAD binding pocket [chemical binding]; other site 760142005133 ATP binding pocket [chemical binding]; other site 760142005134 Mg binding site [ion binding]; other site 760142005135 active-site loop [active] 760142005136 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 760142005137 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 760142005138 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 760142005139 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 760142005140 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 760142005141 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 760142005142 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 760142005143 Glutamine amidotransferase class-I; Region: GATase; pfam00117 760142005144 glutamine binding [chemical binding]; other site 760142005145 catalytic triad [active] 760142005146 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 760142005147 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 760142005148 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 760142005149 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 760142005150 active site 760142005151 ribulose/triose binding site [chemical binding]; other site 760142005152 phosphate binding site [ion binding]; other site 760142005153 substrate (anthranilate) binding pocket [chemical binding]; other site 760142005154 product (indole) binding pocket [chemical binding]; other site 760142005155 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 760142005156 active site 760142005157 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 760142005158 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 760142005159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142005160 catalytic residue [active] 760142005161 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 760142005162 substrate binding site [chemical binding]; other site 760142005163 active site 760142005164 catalytic residues [active] 760142005165 heterodimer interface [polypeptide binding]; other site 760142005166 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 760142005167 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 760142005168 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 760142005169 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 760142005170 metal binding site [ion binding]; metal-binding site 760142005171 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 760142005172 EamA-like transporter family; Region: EamA; cl17759 760142005173 EamA-like transporter family; Region: EamA; cl17759 760142005174 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 760142005175 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 760142005176 CoA-binding site [chemical binding]; other site 760142005177 ATP-binding [chemical binding]; other site 760142005178 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 760142005179 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 760142005180 minor groove reading motif; other site 760142005181 helix-hairpin-helix signature motif; other site 760142005182 substrate binding pocket [chemical binding]; other site 760142005183 active site 760142005184 alanine racemase; Reviewed; Region: alr; PRK00053 760142005185 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 760142005186 active site 760142005187 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 760142005188 dimer interface [polypeptide binding]; other site 760142005189 substrate binding site [chemical binding]; other site 760142005190 catalytic residues [active] 760142005191 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 760142005192 Permease; Region: Permease; pfam02405 760142005193 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 760142005194 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 760142005195 Walker A/P-loop; other site 760142005196 ATP binding site [chemical binding]; other site 760142005197 Q-loop/lid; other site 760142005198 ABC transporter signature motif; other site 760142005199 Walker B; other site 760142005200 D-loop; other site 760142005201 H-loop/switch region; other site 760142005202 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 760142005203 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 760142005204 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 760142005205 homodimer interface [polypeptide binding]; other site 760142005206 substrate-cofactor binding pocket; other site 760142005207 catalytic residue [active] 760142005208 ferric uptake regulator; Provisional; Region: fur; PRK09462 760142005209 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 760142005210 metal binding site 2 [ion binding]; metal-binding site 760142005211 putative DNA binding helix; other site 760142005212 metal binding site 1 [ion binding]; metal-binding site 760142005213 dimer interface [polypeptide binding]; other site 760142005214 structural Zn2+ binding site [ion binding]; other site 760142005215 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 760142005216 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 760142005217 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 760142005218 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 760142005219 replicative DNA helicase; Region: DnaB; TIGR00665 760142005220 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 760142005221 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 760142005222 Walker A motif; other site 760142005223 ATP binding site [chemical binding]; other site 760142005224 Walker B motif; other site 760142005225 DNA binding loops [nucleotide binding] 760142005226 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 760142005227 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 760142005228 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 760142005229 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 760142005230 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 760142005231 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 760142005232 dimer interface [polypeptide binding]; other site 760142005233 ssDNA binding site [nucleotide binding]; other site 760142005234 tetramer (dimer of dimers) interface [polypeptide binding]; other site 760142005235 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 760142005236 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 760142005237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 760142005238 active site 760142005239 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 760142005240 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142005241 Winged helix-turn helix; Region: HTH_29; pfam13551 760142005242 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142005243 MULE transposase domain; Region: MULE; pfam10551 760142005244 transposase/IS protein; Provisional; Region: PRK09183 760142005245 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142005246 Walker A motif; other site 760142005247 ATP binding site [chemical binding]; other site 760142005248 Walker B motif; other site 760142005249 arginine finger; other site 760142005250 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142005251 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 760142005252 active site 760142005253 SAM binding site [chemical binding]; other site 760142005254 homodimer interface [polypeptide binding]; other site 760142005255 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 760142005256 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 760142005257 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 760142005258 active site 760142005259 SAM binding site [chemical binding]; other site 760142005260 homodimer interface [polypeptide binding]; other site 760142005261 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 760142005262 active site 760142005263 putative homodimer interface [polypeptide binding]; other site 760142005264 SAM binding site [chemical binding]; other site 760142005265 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 760142005266 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 760142005267 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 760142005268 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 760142005269 catalytic triad [active] 760142005270 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 760142005271 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 760142005272 active site 760142005273 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 760142005274 active site 760142005275 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 760142005276 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 760142005277 ABC-ATPase subunit interface; other site 760142005278 dimer interface [polypeptide binding]; other site 760142005279 putative PBP binding regions; other site 760142005280 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 760142005281 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 760142005282 Walker A/P-loop; other site 760142005283 ATP binding site [chemical binding]; other site 760142005284 Q-loop/lid; other site 760142005285 ABC transporter signature motif; other site 760142005286 Walker B; other site 760142005287 D-loop; other site 760142005288 H-loop/switch region; other site 760142005289 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 760142005290 intersubunit interface [polypeptide binding]; other site 760142005291 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 760142005292 active site 760142005293 SAM binding site [chemical binding]; other site 760142005294 homodimer interface [polypeptide binding]; other site 760142005295 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 760142005296 active site 760142005297 SAM binding site [chemical binding]; other site 760142005298 homodimer interface [polypeptide binding]; other site 760142005299 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 760142005300 Precorrin-8X methylmutase; Region: CbiC; pfam02570 760142005301 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 760142005302 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 760142005303 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 760142005304 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 760142005305 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 760142005306 WSC domain; Region: WSC; pfam01822 760142005307 PAN domain; Region: PAN_4; pfam14295 760142005308 putative binding site; other site 760142005309 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 760142005310 catalytic residues [active] 760142005311 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 760142005312 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 760142005313 Walker A/P-loop; other site 760142005314 ATP binding site [chemical binding]; other site 760142005315 Q-loop/lid; other site 760142005316 ABC transporter signature motif; other site 760142005317 Walker B; other site 760142005318 D-loop; other site 760142005319 H-loop/switch region; other site 760142005320 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 760142005321 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 760142005322 Walker A/P-loop; other site 760142005323 ATP binding site [chemical binding]; other site 760142005324 Q-loop/lid; other site 760142005325 ABC transporter signature motif; other site 760142005326 Walker B; other site 760142005327 D-loop; other site 760142005328 H-loop/switch region; other site 760142005329 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142005330 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 760142005331 TM-ABC transporter signature motif; other site 760142005332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 760142005333 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 760142005334 TM-ABC transporter signature motif; other site 760142005335 imidazolonepropionase; Validated; Region: PRK09356 760142005336 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 760142005337 active site 760142005338 urocanate hydratase; Provisional; Region: PRK05414 760142005339 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 760142005340 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 760142005341 putative ligand binding site [chemical binding]; other site 760142005342 formimidoylglutamase; Provisional; Region: PRK13775 760142005343 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 760142005344 putative active site [active] 760142005345 putative metal binding site [ion binding]; other site 760142005346 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 760142005347 active sites [active] 760142005348 tetramer interface [polypeptide binding]; other site 760142005349 Transcriptional regulators [Transcription]; Region: MarR; COG1846 760142005350 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 760142005351 putative DNA binding site [nucleotide binding]; other site 760142005352 putative Zn2+ binding site [ion binding]; other site 760142005353 L-aspartate oxidase; Provisional; Region: PRK06175 760142005354 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 760142005355 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 760142005356 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 760142005357 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 760142005358 dimer interface [polypeptide binding]; other site 760142005359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142005360 catalytic residue [active] 760142005361 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 760142005362 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 760142005363 dimerization interface [polypeptide binding]; other site 760142005364 active site 760142005365 metal binding site [ion binding]; metal-binding site 760142005366 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 760142005367 GTPase Era; Reviewed; Region: era; PRK00089 760142005368 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 760142005369 G1 box; other site 760142005370 GTP/Mg2+ binding site [chemical binding]; other site 760142005371 Switch I region; other site 760142005372 G2 box; other site 760142005373 Switch II region; other site 760142005374 G3 box; other site 760142005375 G4 box; other site 760142005376 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 760142005377 MgtE intracellular N domain; Region: MgtE_N; pfam03448 760142005378 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 760142005379 Divalent cation transporter; Region: MgtE; pfam01769 760142005380 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 760142005381 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 760142005382 active site 760142005383 substrate binding site [chemical binding]; other site 760142005384 metal binding site [ion binding]; metal-binding site 760142005385 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 760142005386 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 760142005387 catalytic residues [active] 760142005388 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 760142005389 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 760142005390 ligand binding site [chemical binding]; other site 760142005391 NAD binding site [chemical binding]; other site 760142005392 dimerization interface [polypeptide binding]; other site 760142005393 catalytic site [active] 760142005394 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 760142005395 putative L-serine binding site [chemical binding]; other site 760142005396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 760142005397 TPR repeat; Region: TPR_11; pfam13414 760142005398 Tetratricopeptide repeat; Region: TPR_16; pfam13432 760142005399 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 760142005400 binding surface 760142005401 Tetratricopeptide repeat; Region: TPR_16; pfam13432 760142005402 TPR motif; other site 760142005403 flagellin; Reviewed; Region: PRK08411 760142005404 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 760142005405 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 760142005406 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 760142005407 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 760142005408 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 760142005409 inhibitor-cofactor binding pocket; inhibition site 760142005410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142005411 catalytic residue [active] 760142005412 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 760142005413 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 760142005414 NAD(P) binding site [chemical binding]; other site 760142005415 homodimer interface [polypeptide binding]; other site 760142005416 substrate binding site [chemical binding]; other site 760142005417 active site 760142005418 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 760142005419 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 760142005420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 760142005421 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 760142005422 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 760142005423 short chain dehydrogenase; Provisional; Region: PRK07577 760142005424 classical (c) SDRs; Region: SDR_c; cd05233 760142005425 NAD(P) binding site [chemical binding]; other site 760142005426 active site 760142005427 ORF6N domain; Region: ORF6N; pfam10543 760142005428 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 760142005429 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142005430 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 760142005431 acyl-activating enzyme (AAE) consensus motif; other site 760142005432 acyl-activating enzyme (AAE) consensus motif; other site 760142005433 active site 760142005434 AMP binding site [chemical binding]; other site 760142005435 CoA binding site [chemical binding]; other site 760142005436 pseudaminic acid synthase; Region: PseI; TIGR03586 760142005437 NeuB family; Region: NeuB; pfam03102 760142005438 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 760142005439 NeuB binding interface [polypeptide binding]; other site 760142005440 putative substrate binding site [chemical binding]; other site 760142005441 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 760142005442 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 760142005443 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 760142005444 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 760142005445 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 760142005446 active site 760142005447 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 760142005448 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 760142005449 NAD binding site [chemical binding]; other site 760142005450 putative substrate binding site 2 [chemical binding]; other site 760142005451 putative substrate binding site 1 [chemical binding]; other site 760142005452 active site 760142005453 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 760142005454 transposase/IS protein; Provisional; Region: PRK09183 760142005455 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142005456 Walker A motif; other site 760142005457 ATP binding site [chemical binding]; other site 760142005458 Walker B motif; other site 760142005459 arginine finger; other site 760142005460 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 760142005461 active site 760142005462 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 760142005463 Transposase [DNA replication, recombination, and repair]; Region: COG5421 760142005464 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 760142005465 Uncharacterized conserved protein [Function unknown]; Region: COG1262 760142005466 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 760142005467 Dehydroquinase class II; Region: DHquinase_II; pfam01220 760142005468 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 760142005469 trimer interface [polypeptide binding]; other site 760142005470 active site 760142005471 dimer interface [polypeptide binding]; other site 760142005472 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 760142005473 nucleotide binding site/active site [active] 760142005474 HIT family signature motif; other site 760142005475 catalytic residue [active] 760142005476 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 760142005477 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 760142005478 GDP-binding site [chemical binding]; other site 760142005479 ACT binding site; other site 760142005480 IMP binding site; other site 760142005481 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 760142005482 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 760142005483 dimer interface [polypeptide binding]; other site 760142005484 motif 1; other site 760142005485 active site 760142005486 motif 2; other site 760142005487 motif 3; other site 760142005488 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 760142005489 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 760142005490 catalytic residue [active] 760142005491 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 760142005492 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 760142005493 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 760142005494 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 760142005495 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 760142005496 RNase E interface [polypeptide binding]; other site 760142005497 trimer interface [polypeptide binding]; other site 760142005498 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 760142005499 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 760142005500 RNase E interface [polypeptide binding]; other site 760142005501 trimer interface [polypeptide binding]; other site 760142005502 active site 760142005503 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 760142005504 putative nucleic acid binding region [nucleotide binding]; other site 760142005505 G-X-X-G motif; other site 760142005506 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 760142005507 RNA binding site [nucleotide binding]; other site 760142005508 domain interface; other site 760142005509 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 760142005510 16S/18S rRNA binding site [nucleotide binding]; other site 760142005511 S13e-L30e interaction site [polypeptide binding]; other site 760142005512 25S rRNA binding site [nucleotide binding]; other site 760142005513 CTP synthetase; Validated; Region: pyrG; PRK05380 760142005514 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 760142005515 Catalytic site [active] 760142005516 active site 760142005517 UTP binding site [chemical binding]; other site 760142005518 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 760142005519 active site 760142005520 putative oxyanion hole; other site 760142005521 catalytic triad [active] 760142005522 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 760142005523 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 760142005524 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 760142005525 Glutamate binding site [chemical binding]; other site 760142005526 NAD binding site [chemical binding]; other site 760142005527 catalytic residues [active] 760142005528 Proline dehydrogenase; Region: Pro_dh; cl03282 760142005529 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 760142005530 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 760142005531 substrate-cofactor binding pocket; other site 760142005532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 760142005533 catalytic residue [active] 760142005534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 760142005535 transposase/IS protein; Provisional; Region: PRK09183 760142005536 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142005537 Walker A motif; other site 760142005538 ATP binding site [chemical binding]; other site 760142005539 Walker B motif; other site 760142005540 arginine finger; other site 760142005541 transposase/IS protein; Provisional; Region: PRK09183 760142005542 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 760142005543 Walker A motif; other site 760142005544 ATP binding site [chemical binding]; other site 760142005545 Walker B motif; other site 760142005546 arginine finger; other site 760142005547 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 760142005548 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 760142005549 active site 760142005550 motif I; other site 760142005551 motif II; other site 760142005552 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 760142005553 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 760142005554 Substrate binding site; other site 760142005555 Mg++ binding site; other site 760142005556 metal-binding site 760142005557 Mg++ binding site; other site 760142005558 metal-binding site 760142005559 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 760142005560 dimer interface [polypeptide binding]; other site 760142005561 active site 760142005562 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 760142005563 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 760142005564 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 760142005565 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 760142005566 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 760142005567 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 760142005568 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 760142005569 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 760142005570 active site 760142005571 potential frameshift: common BLAST hit: gi|34558247|ref|NP_908062.1| putative transposase 760142005572 Integrase core domain; Region: rve; pfam00665 760142005573 DDE domain; Region: DDE_Tnp_IS240; pfam13610 760142005574 Integrase core domain; Region: rve_3; pfam13683 760142005575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 760142005576 Transposase; Region: HTH_Tnp_1; cl17663 760142005577 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 760142005578 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 760142005579 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 760142005580 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 760142005581 NAD binding site [chemical binding]; other site 760142005582 substrate binding site [chemical binding]; other site 760142005583 homodimer interface [polypeptide binding]; other site 760142005584 active site 760142005585 hypothetical protein; Reviewed; Region: PRK12275 760142005586 four helix bundle protein; Region: TIGR02436 760142005587 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 760142005588 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 760142005589 NADP binding site [chemical binding]; other site 760142005590 active site 760142005591 putative substrate binding site [chemical binding]; other site 760142005592 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 760142005593 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 760142005594 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 760142005595 substrate binding site; other site 760142005596 tetramer interface; other site 760142005597 Transposase IS200 like; Region: Y1_Tnp; pfam01797 760142005598 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cl07055 760142005599 Transposase, Mutator family; Region: Transposase_mut; pfam00872 760142005600 MULE transposase domain; Region: MULE; pfam10551 760142005601 ORF6N domain; Region: ORF6N; pfam10543 760142005602 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 760142005603 four helix bundle protein; Region: TIGR02436 760142005604 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 760142005605 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 760142005606 Active Sites [active] 760142005607 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 760142005608 Transposase IS200 like; Region: Y1_Tnp; cl00848 760142005609 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 760142005610 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 760142005611 helix-hairpin-helix signature motif; other site 760142005612 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 760142005613 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 760142005614 Mg++ binding site [ion binding]; other site 760142005615 putative catalytic motif [active] 760142005616 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 760142005617 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 760142005618 NAD binding site [chemical binding]; other site 760142005619 homodimer interface [polypeptide binding]; other site 760142005620 active site 760142005621 substrate binding site [chemical binding]; other site